BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645087|ref|NP_207257.1| virB4 homolog (virB4)
[Helicobacter pylori 26695]
(858 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222737.1| DNA transfer protein [Helicobacter pylori ... 703 0.0
ref|NP_223635.1| DNA transfer protein [Helicobacter pylori ... 304 7e-84
ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 ... 107 1e-24
ref|NP_223636.1| DNA transfer protein [Helicobacter pylori ... 69 5e-13
ref|NP_222840.1| putative [Helicobacter pylori J99] 36 0.005
ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori... 35 0.010
ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N... 33 0.030
ref|NP_223176.1| putative [Helicobacter pylori J99] 33 0.030
ref|NP_223113.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobact... 31 0.12
ref|NP_223388.1| putative [Helicobacter pylori J99] 30 0.20
ref|NP_223195.1| cag island protein [Helicobacter pylori J99] 30 0.20
ref|NP_223267.1| ENDONUCLEASE III [Helicobacter pylori J99] 30 0.26
ref|NP_223322.1| putative [Helicobacter pylori J99] 30 0.34
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 30 0.34
ref|NP_224090.1| putative [Helicobacter pylori J99] 29 0.44
ref|NP_223219.1| putative [Helicobacter pylori J99] 29 0.44
ref|NP_224011.1| ATP-DEPENDENT PROTEASE LA [Helicobacter py... 29 0.57
ref|NP_223720.1| putative CYTOCHROME C-TYPE BIOGENESIS PROT... 29 0.57
ref|NP_223039.1| putative [Helicobacter pylori J99] 29 0.57
ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99] 29 0.57
ref|NP_224002.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRA... 28 0.75
ref|NP_223534.1| putative [Helicobacter pylori J99] 28 0.75
ref|NP_223495.1| putative Outer membrane protein [Helicobac... 28 0.75
ref|NP_223197.1| cag island protein [Helicobacter pylori J99] 28 0.75
ref|NP_223025.1| putative [Helicobacter pylori J99] 28 0.75
ref|NP_222962.1| putative [Helicobacter pylori J99] 28 0.75
ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrop... 28 0.75
ref|NP_223609.1| 3-DEOXY-D-MANNO-OCTULOSONIC-ACID TRANSFERA... 28 0.98
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 28 0.98
ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 28 0.98
ref|NP_222954.1| putative [Helicobacter pylori J99] 28 1.3
ref|NP_222936.1| 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSF... 28 1.3
ref|NP_223787.1| putative [Helicobacter pylori J99] 27 1.7
ref|NP_223035.1| putative [Helicobacter pylori J99] 27 1.7
ref|NP_223640.1| Component of conjugal plasmid transfer sys... 27 2.2
ref|NP_223418.1| FUNCTIONAL HOMOLOG OF SRP RECEPTOR [Helico... 27 2.2
ref|NP_223308.1| LYTIC MUREIN TRANSGLYCOSYLASE [Helicobacte... 27 2.2
ref|NP_224003.1| putative [Helicobacter pylori J99] 27 2.8
ref|NP_223966.1| CATION EFFLUX SYSTEM PROTEIN [Helicobacter... 27 2.8
ref|NP_223830.1| putative [Helicobacter pylori J99] 27 2.8
ref|NP_223773.1| putative [Helicobacter pylori J99] 27 2.8
ref|NP_222996.1| DIAMINOPIMELATE DECARBOXYLASE [Helicobacte... 27 2.8
ref|NP_222888.1| abc transporter, ATP-binding protein [Heli... 27 2.8
ref|NP_222877.1| putative [Helicobacter pylori J99] 27 2.8
ref|NP_222756.1| DNA transformation competancy [Helicobacte... 27 2.8
ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Heli... 26 3.7
ref|NP_223891.1| putative [Helicobacter pylori J99] 26 3.7
ref|NP_223810.1| glucose-6-phosphate isomerase [Helicobacte... 26 3.7
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 26 3.7
ref|NP_223778.1| ATP synthase F1, subunit gamma [Helicobact... 26 3.7
ref|NP_223651.1| putative [Helicobacter pylori J99] 26 3.7
ref|NP_223642.1| putative [Helicobacter pylori J99] 26 3.7
ref|NP_223345.1| FERROUS IRON TRANSPORT PROTEIN B [Helicoba... 26 3.7
ref|NP_223204.1| cag island protein [Helicobacter pylori J99] 26 3.7
ref|NP_223020.1| putative abc transporter, ATP-binding prot... 26 3.7
ref|NP_224048.1| putative [Helicobacter pylori J99] 26 4.9
ref|NP_223739.1| putative Outer membrane protein [Helicobac... 26 4.9
ref|NP_223319.1| putative [Helicobacter pylori J99] 26 4.9
ref|NP_223242.1| METHYLENETETRAHYDROFOLATE DEHYDROGENASE/ME... 26 4.9
ref|NP_223055.1| putative [Helicobacter pylori J99] 26 4.9
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 26 4.9
ref|NP_222761.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [He... 26 4.9
ref|NP_224110.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_223539.1| IRON(III) DICITRATE TRANSPORT SYSTEM ATP-B... 25 6.3
ref|NP_223498.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_223372.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_223180.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_223081.1| GLUCOSE INHIBITED DIVISION PROTEIN B [Heli... 25 6.3
ref|NP_222782.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_222780.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_222772.1| putative [Helicobacter pylori J99] 25 6.3
ref|NP_224034.1| DNA transfer protein [Helicobacter pylori ... 25 8.3
ref|NP_223732.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [He... 25 8.3
ref|NP_223476.1| osmoprotection ATP-binding protein [Helico... 25 8.3
ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99] 25 8.3
ref|NP_223310.1| putative [Helicobacter pylori J99] 25 8.3
ref|NP_223206.1| cag island protein [Helicobacter pylori J99] 25 8.3
ref|NP_223192.1| cag island protein, DNA transfer protein [... 25 8.3
ref|NP_222995.1| putative vacuolating cytotoxin (VacA) para... 25 8.3
ref|NP_222912.1| putative [Helicobacter pylori J99] 25 8.3
ref|NP_222735.1| putative [Helicobacter pylori J99] 25 8.3
>ref|NP_222737.1| DNA transfer protein [Helicobacter pylori J99]
Length = 787
Score = 703 bits (1815), Expect = 0.0
Identities = 390/838 (46%), Positives = 538/838 (63%), Gaps = 57/838 (6%)
Query: 1 MLESALKYCKEKAIDLLVGFVPKTYSMAQECNILGLYDDAFIITKQENLVGIISLQGLSY 60
MLE L K+K + +G +PK+YSM++E NILGLYD+ F++TK ENLVGI+ L+G+SY
Sbjct: 1 MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSY 60
Query: 61 SNLMQKDLEGYFDARQNVLNTISKDIQLRIVAKRRKEFINQSPNIDNIYAKAIITQFESK 120
++L + L+ F RQ L+++ K + R+V KRRK QS D+ Y +AI+ QFE+K
Sbjct: 61 THLSTEQLQDLFTERQMALDSLEK-VVARLVVKRRKIDYKQSIQSDSQYLQAILNQFENK 119
Query: 121 GIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTS 180
+Y+ +YFLV LE T S++ LE K N
Sbjct: 120 EVYENQYFLV----------------LESTHSLHGVLEHKKKSFMHAN------------ 151
Query: 181 SKKDKKNKFKKKITFSTKSKRALLIQTIERVKNALKEFKPTLLNSKEVLNFYAEYINGKY 240
+ FK +++ K L +T++ ++ LK + P LLNSKEVLNFYAEYING
Sbjct: 152 -----RENFKDILSY----KAHFLQETLKSLEIQLKNYAPKLLNSKEVLNFYAEYINGFE 202
Query: 241 IAFNPKLKR-LSDSYIASNVHFKKDYFVIEFQNQNTFCACVGIKAYESEEISSLPISTLL 299
+ P + LSDSYIAS++ F+KDYF+ E NQ T+ +GIKAYESE I+S+ + LL
Sbjct: 203 LPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYNRLIGIKAYESERITSIAVGALL 262
Query: 300 HTQIELDLIFHIRSLGQFESLNFLKTKKKLTLSKIVKADIDNYIELVQANRLSMQECALN 359
+ + LD+IF I + ++L+FLK + K ++S +VK ++ Y ELV+ RLSMQ+ ALN
Sbjct: 263 YQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFALN 322
Query: 360 LVIRAKSKAKLDKSLKEILSLLNNAGLGSVTETIGLKPSYFSFFPNNANINPRMRHQTSQ 419
++I+A S LD IL LL L V ET GLK YFSFFP ++N R+R TS+
Sbjct: 323 VLIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSK 382
Query: 420 VIASLILFEKNNTGFRANSWGDMPLSVFKNLDHSPYLFNFHNQEVKHKGVLAHNVARVVG 479
+A L++FE+ N GF+ANSWG+ PLSVFKNLD+SP+LFNFHNQEV H A +ARV G
Sbjct: 383 ALACLMVFERQNLGFKANSWGNSPLSVFKNLDYSPFLFNFHNQEVSHNN--AKEIARVNG 440
Query: 480 HTMIIGATGAGKTTLISYLMMSALKYSNIDILALDRLNGLYSFTKYFDGIYNQGENFHIN 539
HT++IGATG+GK+TLISYLMMSALKY N+ +LA DR+ GLYSFT++F G Y+ G++F IN
Sbjct: 441 HTLVIGATGSGKSTLISYLMMSALKYQNMRLLAFDRMQGLYSFTEFFKGHYHDGQSFSIN 500
Query: 540 PFSLEDSATNRAFLLHFYAQMAKVDSYDDHKDKVEDRTALLNAIDTMYRNYNDEVKQAKF 599
PF LE + N FL F+ M + D K+ +ED A+ AI ++Y
Sbjct: 501 PFCLEPNLQNLEFLQSFFLSMLDLAPSRD-KEALEDMNAISGAIKSLYETL--------- 550
Query: 600 SNQELPLPFDLKEFVNAIAKTNTDILDSSFEDYLKSSLFSSRMDSLDFKTRISTINTDSI 659
P F L +F + +T+++ L S E YL + LF++ D+ + ++ IN D+I
Sbjct: 551 ----YPKDFSLLDFKETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAI 606
Query: 660 LHNDDDAGLLAYYVFHKMIDRALKINRGFLCFIDEFKSYAQNEMMNKKINEIITQARKAN 719
N D GLLAYY+F+K+++ + K + GFL F+DEFKSY +N+++N KIN +ITQARKAN
Sbjct: 607 TQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLDEFKSYVENDLLNTKINALITQARKAN 666
Query: 720 GVIVLALQDINQLSEVRNAQSFIKNMGQLILYPQRNIDTKDLNDKFGIRLSDTEKHFLEN 779
GV+VLALQDI QLS V+NA SF+ NMG LILYPQ+N ++L F + LS+TE FLEN
Sbjct: 667 GVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKN--ARELKHNFNVPLSETEISFLEN 724
Query: 780 TAVNEYKVLLKNMNDGSSNIIDVSLSSLGNYLQIFSSNSSMVEHIDNLIKHYPKTWRE 837
T + +VL+KN+ +GSSN+IDVSL LG YL+IF+S+SS V + L K YP WRE
Sbjct: 725 TPLYARQVLVKNLGNGSSNMIDVSLEGLGCYLKIFNSDSSHVNKVKALQKDYPTEWRE 782
>ref|NP_223635.1| DNA transfer protein [Helicobacter pylori J99]
Length = 475
Score = 304 bits (778), Expect = 7e-84
Identities = 180/495 (36%), Positives = 282/495 (56%), Gaps = 33/495 (6%)
Query: 211 VKNALKEFKPTLLNSKEVLNFYAEYINGKYIAFNPKLKRLSDSYIASNVHFKKDYFVIEF 270
+ + L +F+P L+S ++LN YAEY NG Y F K +RLSD I S+++FKKD+F+ ++
Sbjct: 1 MSSILTDFEPKFLSSDDLLNLYAEYCNGHYCDFKYKQRRLSDGNIQSHLYFKKDHFIHDY 60
Query: 271 QNQNTFCACVGIKAYESEEISSLPISTLLHTQIELDLIFHIRSLGQFESLNFLKTKKKLT 330
TF + +KAY+ + I+SL +S LL + LD++ I ++ + +L F++ +KK +
Sbjct: 61 NGIETFKRFIAVKAYDVDNITSLALSNLLCEKFNLDILLTIEAMDKERALFFIRERKKRS 120
Query: 331 LSKIVKADIDNYIELVQANRLSMQECALNLVIRAKSKAKLDKSLKEILSLLNNAGLGSVT 390
I +I+ ++V +R +Q+ +L++++ A SK +LDK + + L G +V
Sbjct: 121 -KDISYQNIEYLEQMVSTDRAQIQKVSLSIMVFANSKKELDKKSIIVYNTLKKEGFSAVL 179
Query: 391 ETIGLKPSYFSFFPNNANINPRMRHQTSQVIASLILFEKNNTGFRANSWGDMPLSVFKNL 450
E+I ++P +FSFFP +N R+R QTSQ IASLI+FEK GF+ NSWGD P+SVFKN
Sbjct: 180 ESINMRPIFFSFFPERNFLNSRLRPQTSQNIASLIMFEKYQEGFKENSWGDCPVSVFKNQ 239
Query: 451 DHSPYLFNFHNQEVKHKGVLAHNVARVVGHTMIIGATGAGKTTLISYLMMSALKYSNIDI 510
+ S + FNF ++ K K VVGHTMIIG+TG+GK+T IS+L+ + L ++ +
Sbjct: 240 NGSAHFFNFQAKQGKDKN------DNVVGHTMIIGSTGSGKSTFISFLIANLLTKYDMSV 293
Query: 511 LALDRLNGLYSFTKYFDGIYNQGE---NFHINPFSLEDSATNRAFLLHFYAQMAKVDSYD 567
+ALDR+NGL T +F+G YN F+INPFSL+DS NR FL ++ M +DS +
Sbjct: 294 VALDRMNGLEIMTDFFEGQYNTANTDGGFYINPFSLKDSEENRQFLANWIKFMLNIDSDN 353
Query: 568 DHKDKVEDRTALLNAIDTMYRNYNDEVKQAKFSNQELPLPFDLKEFVNAIAKTNTDILDS 627
+K ++ I Y D+ Q +L E + + D
Sbjct: 354 QQDNKASQ--SIDKVIRDTYNYMGDQKNQ-----------INLLEIAKNLGSSEQD---- 396
Query: 628 SFEDYLKSS----LFSSRMDSLDF-KTRISTINTDSILHNDDDAGLLAYYVFHKMIDRAL 682
F + LKS F + D LDF + +S IN D+ ++ GL+A Y+FHK+ A
Sbjct: 397 -FNEILKSQGEKIYFKNFQDCLDFSNSPLSVINMDAFANDKKLMGLIAMYLFHKLFFEAK 455
Query: 683 KINRGFLCFIDEFKS 697
+ N+ F + + K+
Sbjct: 456 EHNKPFFYSLMKLKT 470
>ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 homolog) [Helicobacter
pylori J99]
Length = 983
Score = 107 bits (268), Expect = 1e-24
Identities = 188/856 (21%), Positives = 351/856 (40%), Gaps = 125/856 (14%)
Query: 38 DDAFIITKQENLVGIISLQGLSYSNLMQKDLEGYFDARQNVL-NTISKDIQLRIVAKRRK 96
DD I+T +L+G I L G+ + +KDL + +V N ++ + + ++K
Sbjct: 172 DDGVILTNNYSLLGTIKLGGIDFLTTSKKDLIELHASIYSVFRNFVTPEFKFYFHTVKKK 231
Query: 97 EFINQSPNIDNIYAKAIITQFESKGIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEE 156
I+++ +Y L+F ++++ EK+K E I+
Sbjct: 232 IVIDET---------------------NRDYGLIFSN--DFMRAYNEKQKRESFYDISFY 268
Query: 157 LEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERVK-NAL 215
L NE N+ H ++ ++ + + K+ + K + L+ + + + L
Sbjct: 269 LTIEQDLLDTLNEPVMNKKHFADNNFEEFQRIIRAKLE-NFKDRIELIEELLSKYHPTRL 327
Query: 216 KEF-KPTLLNSKEVLNFYAEYINGKYIAFNPKLKRLSDSYIASNVH--FKKDYFVIEFQN 272
KE+ K ++ SK+ FY ++ G A P + D Y+ +H K+ YF +
Sbjct: 328 KEYTKDGIIYSKQC-EFY-NFLVGMNEA--PFICNRKDLYLKEKMHGGVKEVYFANKHGK 383
Query: 273 -QNTFCACVGIKAYESEEISSLPISTLLHTQIELDLIFHIRSLGQFESLNFLKTKKKLTL 331
N + A E E + S L LD F ++ LK K T
Sbjct: 384 ILNDDLSEKYFSAIEISEYAPKSQSDLFDKINALDSEFIFMHAYSPKNSQVLKDKLAFTS 443
Query: 332 SKIVKAD--------IDNYIELVQANRLSMQECALNLVIRAKSKAKLDKSLKEILSLLNN 383
+I+ + + ELV +++ +LV+ A S K+ +S+KE +S LN
Sbjct: 444 RRIIISGGSKEQGMTLGCLSELVGNGDITLGSYGNSLVLFADSFEKMKQSVKECVSSLNA 503
Query: 384 AGLGSVTETIGLKPSYFSFFPNNANINPRMRHQTSQVIASLILFEKNNTGFRA--NSWGD 441
G + T ++ +F+ + + P + TS A I + + N+WG+
Sbjct: 504 KGFLANAATFSMENYFFAKHCSFITL-PFIFDVTSNNFADFIAMRAMSFDGKEDNNAWGN 562
Query: 442 MPLSVFKNLDHSPYLFNFHNQEVKHKGVLAHNVARVVGHTMIIGATGAGKTTLISYLM-- 499
+++ K+ +SP+ NFH + + GHT+I+G+TG+GKT +S +
Sbjct: 563 SVMTL-KSEINSPFYLNFH--------MPTDFGSASAGHTLILGSTGSGKTVFMSMTLNA 613
Query: 500 MSALKYS----------NIDILALDRLNGLYSFTKYFDGIY---NQGENFHINPF----- 541
M Y+ + ++ +D+ G Y G Y G + +NPF
Sbjct: 614 MGQFAYNFPANISKDKQKLTMVYMDKDYGAYGNIVAMGGEYVKIELGTDTGLNPFAWAAC 673
Query: 542 ------SLEDSATNRAFLLHFYAQMA-KVDSYDDHKDKVEDRTALLNAIDTMYRNYNDEV 594
++E T + + +A K D D++ + + A N + N
Sbjct: 674 VQKTNATMEQKQTAISVVKELVKNLATKSDEKDENGNSISFSLADSNTLAAAVTN----- 728
Query: 595 KQAKFSNQELPLPFDLKEFVNAIAKTNTDI--LDSSFEDYLKSS------LFSSR-MDSL 645
++ L + + + +NA K + D L + + KS+ LF ++ D L
Sbjct: 729 ----LITGDMNLDYPITQLINAFGKDHNDPNGLVARLAPFCKSTNGEFQWLFDNKATDRL 784
Query: 646 DFKTRISTINTDSILHNDDDAGLLAYYVFHKMIDRALKINRGFLCFIDEFKSYAQNEMMN 705
DF I ++ S L N+D + + +Y+F + I A+ R F+ IDE Y + +
Sbjct: 785 DFSKTIIGVDGSSFLDNNDVSPFICFYLFAR-IQEAMD-GRRFVLDIDEAWKYLGDPKVA 842
Query: 706 KKINEIITQARKANGVIVLALQDINQLSEVRNAQSFIKNMGQLILYPQRNIDTKDLNDKF 765
+ +++ ARK N ++ LA Q I L A + + TK
Sbjct: 843 YFVRDMLKTARKRNAIVRLATQSITDLLACPIADTI-----------REQCPTKIFLRND 891
Query: 766 GIRLSDTEKHFLENTAVNEYKVLLKNMN-------DGSSNIIDVSLSSLG---NYLQIFS 815
G LSD ++ L N E++++ K ++ DGS ++I S + G YL+I S
Sbjct: 892 GGNLSDYQR--LANVTEKEFEIITKGLDRKILYKQDGSPSVI-ASFNLRGIPKEYLKILS 948
Query: 816 SNSSMVEHIDNLIKHY 831
+++ V+ ID +I+++
Sbjct: 949 TDTVFVKEIDKIIQNH 964
>ref|NP_223636.1| DNA transfer protein [Helicobacter pylori J99]
Length = 140
Score = 68.9 bits (167), Expect = 5e-13
Identities = 44/128 (34%), Positives = 72/128 (55%), Gaps = 5/128 (3%)
Query: 708 INEIITQARKANGVIVLALQDINQLSE--VRNAQSFIKNMGQLILYPQRNIDTKDLNDKF 765
I + QARK NG + +A Q I+Q+ E + A+S I N+ Q+I+YP + DT +L +
Sbjct: 9 IANALAQARKINGTLCMAFQKISQVKELGIDKAKSLIGNLSQVIIYPTK--DTDELIE-C 65
Query: 766 GIRLSDTEKHFLENTAVNEYKVLLKNMNDGSSNIIDVSLSSLGNYLQIFSSNSSMVEHID 825
G+ LSD+E +FL NT + +VL+KN+ +S I++ L + IF ++E
Sbjct: 66 GVPLSDSEINFLHNTDMRARQVLVKNIVTNASAFIEIDLKKICKNYFIFLIAMLVIEKSS 125
Query: 826 NLIKHYPK 833
++K K
Sbjct: 126 MILKKQTK 133
>ref|NP_222840.1| putative [Helicobacter pylori J99]
Length = 285
Score = 35.8 bits (81), Expect = 0.005
Identities = 29/101 (28%), Positives = 50/101 (48%), Gaps = 13/101 (12%)
Query: 132 ETITSNVKSFFEKK---KLEMTTSINEELEESSKE-------DKQENENSSNETHSN--- 178
E + K+ F+K+ +LE T E + S + D N N+ ET S
Sbjct: 185 EQAEKDTKAAFQKRSSGELESHTDSPEFISSSKTQNSSNPDLDPMTNANTLKETASKEPE 244
Query: 179 TSSKKDKKNKFKKKITFSTKSKRALLIQTIERVKNALKEFK 219
TSSKK+KK K K++++ K ++AL + +++ ++ K K
Sbjct: 245 TSSKKEKKPKKKRRLSKKEKQQQALQQEFEKQISDSSKSEK 285
>ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 849
Score = 34.7 bits (78), Expect = 0.010
Identities = 25/86 (29%), Positives = 46/86 (53%), Gaps = 8/86 (9%)
Query: 145 KKLEMTTSINEELEE--SSKEDKQENENSS-----NETHSNTSSKKDKKNKFKKKITFST 197
++ E SI E EE +SKE+K+EN+ + N+T N + K++K + K T+
Sbjct: 469 EQAEQGCSIGENKEEAVASKENKEENKTEAAAPKENQT-ENKTEVKEEKIEVPTKTTYLL 527
Query: 198 KSKRALLIQTIERVKNALKEFKPTLL 223
+ + ++T E++ L++ TLL
Sbjct: 528 LEEAGINLETYEKILALLQKSNNTLL 553
>ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N) [Helicobacter pylori
J99]
Length = 522
Score = 33.1 bits (74), Expect = 0.030
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 182 KKDKKNKFKKKITFSTKSKRALLIQTIERVKNALKEFKPTLLNSKEVLNFYAEYINGKYI 241
KK+K F + + S + +ALL I+R+ N F LN +L+ YI K
Sbjct: 94 KKEKTRYFLNQTSLSKNTLKALLKGLIKRLSN--DRFSQNELNDILMLSLLDGYIQNKNK 151
Query: 242 AFNPKLKRLSDSY 254
AF+P L L +
Sbjct: 152 AFSPLLDALETKF 164
Score = 32.7 bits (73), Expect = 0.040
Identities = 49/237 (20%), Positives = 99/237 (41%), Gaps = 41/237 (17%)
Query: 479 GHTMIIGATGAGKTTLISYLMMS-ALKYSNIDILALDRLNGLYSFTKYFDGIYNQGEN-- 535
G + I GA+G GK+ LI+ L+ + LK SN + ++ + +Y GI+ + E+
Sbjct: 30 GLSAISGASGVGKSVLIASLLGAFGLKESNASNIEVELIAPFLDTEEY--GIFREDEHEP 87
Query: 536 ------------FHINPFSLEDSATNRAFL----------------LHFYAQMAKVDSYD 567
+ +N SL + T +A L L+ ++ +D Y
Sbjct: 88 LVISVIKKEKTRYFLNQTSLSKN-TLKALLKGLIKRLSNDRFSQNELNDILMLSLLDGYI 146
Query: 568 DHKDKVEDRTALLNAIDTMYRNYNDEVKQAKFSNQELPLPFDLKEFVN--AIAKTNTDIL 625
+K+K + LL+A++T + ++ + + DL+E +N + D+
Sbjct: 147 QNKNKA--FSPLLDALETKFTRLEKLERERRSLEDKKRFQKDLEERLNFEKMKLERLDLK 204
Query: 626 DSSFEDYLKSSLFSSRMDSLDFKTRIS---TINTDSILHNDDDAGLLAYYVFHKMID 679
+ +E L+ S + L+ K ++ NT I H + G A ++ +++
Sbjct: 205 EDEYERLLEQKKLLSSKEKLNDKIALALDVLENTHKITHALESVGHSAEFLKSALLE 261
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 33.1 bits (74), Expect = 0.030
Identities = 40/191 (20%), Positives = 73/191 (37%), Gaps = 33/191 (17%)
Query: 15 DLLV----GFVPKTYSMAQECNILGLYDDAFIITKQENLVGIISLQGLSYSNLMQKDLEG 70
DLLV GF PK ++ + CN+ Y I N + I+S + + D G
Sbjct: 141 DLLVTFLNGFDPKIANLRKACNV---YSVGVIYIVTTNTLNILSCESFEILEKRELDTSG 197
Query: 71 YFDARQNVLNTISKDIQLRIVAKRRKEFINQSPNIDNIYAKAIITQFESKGIYKTEYFLV 130
V K F ++ ID + + +SK + LV
Sbjct: 198 --------------------VTKTSTPFFSRVEGIDAGTLGKLFSGSQSKNYFAYYDALV 237
Query: 131 FETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFK 190
+ V+ ++++++ + E +E+ KE K+ N+ + N + ++KN K
Sbjct: 238 KKEKRKEVRIEKKEERIDARENKREIKQEAIKEPKKANQGTEN------APTLEEKNYQK 291
Query: 191 KKITFSTKSKR 201
+ F K +R
Sbjct: 292 AERKFDAKEER 302
>ref|NP_223113.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobacter pylori J99]
Length = 285
Score = 31.2 bits (69), Expect = 0.12
Identities = 23/125 (18%), Positives = 55/125 (43%), Gaps = 25/125 (20%)
Query: 56 QGLSYSNLMQKDLEGYFDARQNVLNTISKDIQLRIVAKR------RKEFINQSPNIDNIY 109
+G S + DL+ + + N+ I+ ++ + + + E + P ++ Y
Sbjct: 80 EGASKEEMDNDDLDAFKEMASNIFGAIATSLKSQELLPKLNFTTTNAEIAKELPKKED-Y 138
Query: 110 AKAIITQFESKGIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENE 169
AKA++ F+ + I +++ L+ +T++ + E++ KE+K+E
Sbjct: 139 AKAMVFSFKMEAIKESQIVLL------------------ITSAFEGQFEKTHKEEKEETT 180
Query: 170 NSSNE 174
S+ E
Sbjct: 181 KSATE 185
>ref|NP_223388.1| putative [Helicobacter pylori J99]
Length = 192
Score = 30.4 bits (67), Expect = 0.20
Identities = 29/93 (31%), Positives = 37/93 (39%), Gaps = 14/93 (15%)
Query: 445 SVFKNLDHSPYLFNFHNQE------------VKHKGVLAHNVARVVGHTMIIGATGAGKT 492
S+FKN D NQE +K L +N G TGAGK+
Sbjct: 21 SIFKNADGRDEKLKRFNQEALEVFQKLERESLKELESLKNNEEWENFTIAFYGETGAGKS 80
Query: 493 TLISYLMMSALKYSNIDILALDRLNGLYSFTKY 525
TLI L M + S +D +R LYS +Y
Sbjct: 81 TLIECLRMFFKEQSKVD--QQERFKRLYSTYQY 111
>ref|NP_223195.1| cag island protein [Helicobacter pylori J99]
Length = 522
Score = 30.4 bits (67), Expect = 0.20
Identities = 26/98 (26%), Positives = 47/98 (47%), Gaps = 13/98 (13%)
Query: 131 FETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFK 190
F +T + + F + KKL + +ELEE K ++E E + ++K +K+K +
Sbjct: 115 FALMTRDYQEFLKTKKLIVDAPDPKELEEQKKALEKEKE-------AKEQAQKAQKDKRE 167
Query: 191 KKITFSTKSKRALLIQTIERVKNALKEFKPTLLNSKEV 228
K+ K +RA +E + NA+ L N+K +
Sbjct: 168 KR-----KEERAKNRANLENLTNAMSN-PQNLSNNKNL 199
>ref|NP_223267.1| ENDONUCLEASE III [Helicobacter pylori J99]
Length = 218
Score = 30.0 bits (66), Expect = 0.26
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 6/92 (6%)
Query: 118 ESKGIYKTE------YFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENS 171
+ KGI K Y E + + S+ KKL + +EL+ ++ QEN NS
Sbjct: 125 DQKGIGKESADAILCYVCAKEVMVVDKYSYLFLKKLGIEIEDYDELQHFFEKGVQENLNS 184
Query: 172 SNETHSNTSSKKDKKNKFKKKITFSTKSKRAL 203
+ + NT S +F KI +K K L
Sbjct: 185 ALALYENTISLAQLYARFHGKIVEFSKQKLEL 216
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 29.6 bits (65), Expect = 0.34
Identities = 17/45 (37%), Positives = 23/45 (50%)
Query: 158 EESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRA 202
+ESS + K E S E + KD KNK +KK T + + RA
Sbjct: 34 QESSLDKKIRQELKSKELKNKELKNKDLKNKEEKKETKAKRKPRA 78
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 29.6 bits (65), Expect = 0.34
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 153 INEE--LEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQ-TIE 209
IN E ++E + ++ENS ++ + S++D++N+ +KK+ KR +Q + +
Sbjct: 224 INRERRVKELFRSFDDDDENSVSDPKKDDDSEEDEENEERKKVVSEKDKKRVEKVQESFK 283
Query: 210 RVKNALKEFKPTL 222
+ A KE+ L
Sbjct: 284 ALDKAKKEWLKAL 296
Score = 25.8 bits (55), Expect = 4.9
Identities = 15/51 (29%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 158 EESSKEDKQENEN-SSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQT 207
E++ K KQE + ++ E + S+K++K NK K+ K+K + + +T
Sbjct: 8 EKAPKRAKQEAKTEATQENKAKESNKENKNNKAKEGKIKEAKTKESKVKET 58
Score = 25.4 bits (54), Expect = 6.3
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 144 KKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSK 200
KKK + +E+ E QEN+ + E++ + K K+ K K+ T +K K
Sbjct: 2 KKKANEEKAPKRAKQEAKTEATQENK--AKESNKENKNNKAKEGKIKEAKTKESKVK 56
>ref|NP_224090.1| putative [Helicobacter pylori J99]
Length = 841
Score = 29.3 bits (64), Expect = 0.44
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 21/79 (26%)
Query: 153 INEE---LEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIE 209
+NEE LEE E+K E E HS S K L QTI
Sbjct: 2 LNEEQNSLEEKGGENKNEKETPLKGIHSKIPSLKQA------------------LEQTIS 43
Query: 210 RVKNALKEFKPTLLNSKEV 228
++K++ + FK L N K++
Sbjct: 44 KIKSSKEFFKQLLHNKKKL 62
>ref|NP_223219.1| putative [Helicobacter pylori J99]
Length = 321
Score = 29.3 bits (64), Expect = 0.44
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 143 EKKKLEMTTSINEELEESSKEDKQ---ENENS-----SNETHSNTSSKKDKKNK----FK 190
E+KKLE T + E+ +E K+ K+ EN N+ + +KKN FK
Sbjct: 201 EEKKLEPTPKLEEKHKEQDKQGKEAIKENPNTIYIIPKRDIWVEVIDLDEKKNSFQKVFK 260
Query: 191 KKITFSTKSKRALL 204
K K+ R LL
Sbjct: 261 KSYPLEAKNHRLLL 274
>ref|NP_224011.1| ATP-DEPENDENT PROTEASE LA [Helicobacter pylori J99]
Length = 831
Score = 28.9 bits (63), Expect = 0.57
Identities = 42/193 (21%), Positives = 82/193 (41%), Gaps = 22/193 (11%)
Query: 206 QTIERVKNALKEFKPTLLNSKEVLNFYAEYINGKYIAFNPKLKRLSDSYIASNVHFKKDY 265
+ I+ + LKE TL N + F + I K + N R++D IA+ +H KKD
Sbjct: 123 ENIQAIVEVLKEKVITLANVSSL--FPPDLI--KALEDNDDPNRIAD-LIAAALHLKKDQ 177
Query: 266 FVIEFQNQNTFCACVGIKAYESEEISSLPISTLLHTQIELDLIFHIRSLGQFESLNFLK- 324
F N NT + + EE + + + +++ + + Q FLK
Sbjct: 178 AYFLFANNNTEQRLLDLIDIVIEETKTQKLQKEIKSKVH-------QKMEQTNKEYFLKE 230
Query: 325 ----TKKKLTLSKIVKADIDNYIELVQANRLSMQECALNLVIRAKSKAKLDKSLKEILSL 380
+K+L K D++ Y + +++ + ++E A + K ++D+ +
Sbjct: 231 QLKQIQKELGTDKQRDEDLNQYYQKLESIKPFLKEEAFKEI-----KKQIDRLSRTHADS 285
Query: 381 LNNAGLGSVTETI 393
++A L + ET+
Sbjct: 286 SDSATLQNYVETM 298
>ref|NP_223720.1| putative CYTOCHROME C-TYPE BIOGENESIS PROTEIN [Helicobacter pylori
J99]
Length = 936
Score = 28.9 bits (63), Expect = 0.57
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 11/87 (12%)
Query: 162 KEDKQENENSSNETHSNTSSKKDKKNKFKKKITF----------STKSKRALLIQTIERV 211
+E+ ++ S +T+ N + +KK K +TF +T + LL++ +E
Sbjct: 111 RENSAQSSFESADTYLNITLNDEKKLSLKTPLTFYYSKRLKPIHATLDHKPLLLEPLEIY 170
Query: 212 K-NALKEFKPTLLNSKEVLNFYAEYIN 237
K NA+K+ T+L K N + N
Sbjct: 171 KQNAIKKDDATILVLKATYNGVSRKFN 197
>ref|NP_223039.1| putative [Helicobacter pylori J99]
Length = 186
Score = 28.9 bits (63), Expect = 0.57
Identities = 30/129 (23%), Positives = 54/129 (41%), Gaps = 14/129 (10%)
Query: 67 DLEGYFDARQNVLNTISKDIQLRIVAKRRKEFINQSPNIDNIYAKAIITQFESKGIYKTE 126
D+ Y D RQ +L+T S I L I + I S +++ + + K
Sbjct: 58 DIWVYSDVRQFLLDTSSSFIWLLIALLIKWGVIVISARKCYQFSQKMFALIQRK------ 111
Query: 127 YFLVFETITSNVKSFFEKK---KLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKK 183
I N+K+ +K E ++I EE+ +E+ E+S++E H + S
Sbjct: 112 -----RQIRENLKNRSNRKDAKNFEKLSNIAEEIISKKQEESHHKEDSNDENHKDKLSNI 166
Query: 184 DKKNKFKKK 192
++ KK+
Sbjct: 167 TEEMILKKQ 175
>ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99]
Length = 486
Score = 28.9 bits (63), Expect = 0.57
Identities = 55/255 (21%), Positives = 97/255 (37%), Gaps = 42/255 (16%)
Query: 48 NLVGIISLQGLSYSNLMQKDLEGYFDARQNVLNTISKDIQLR--IVAKRRKEFINQSPNI 105
+LV + + + SNL + G FD QN L + KD + A++ K + S N
Sbjct: 167 SLVQKLQMVTQNASNLKVFGVSGDFDDAQNALKNLLKDDDFNEALKARQLKLSVANSVNF 226
Query: 106 DNIYAKAIITQFESKGIYKTEYFLVFETITSNVKS---------FFEKK------KLEMT 150
I + + + +YK E IT + S F+ KK K+++
Sbjct: 227 GRIAFQIVYHIWGFLELYKKGAINSKEKITLAIPSGNFGNALGAFYAKKMGLNIAKIKVV 286
Query: 151 TSINEELEESSKEDKQE-NENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIE 209
T+ N+ L E + + + + S +T S N + + + L+Q +E
Sbjct: 287 TNSNDVLREFIETGRYDLTKRSLKQTFSPAMDILKSSNVERALFSLFGFERTLELMQALE 346
Query: 210 RVK-NALKEFKPTLLNS-------------KEVLNFYAEYINGKYI-------AFNPKLK 248
K ALK + LL K + YAE+ +Y+ A N LK
Sbjct: 347 EEKFYALKPKELALLQEHFSCASCSDEDCLKTIQEVYAEH---QYLIDPHTATALNASLK 403
Query: 249 RLSDSYIASNVHFKK 263
+ +++ ++K
Sbjct: 404 THEKTLVSATASYEK 418
>ref|NP_224002.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE) [Helicobacter
pylori J99]
Length = 649
Score = 28.5 bits (62), Expect = 0.75
Identities = 56/262 (21%), Positives = 103/262 (38%), Gaps = 34/262 (12%)
Query: 589 NYNDEVKQAKFSNQELPLPFDLKEFV-NAIAKTNTDILDSSFEDYLKSSLFSSRMDSLDF 647
N++ + ++K N+++ L FDLK V + KTNT +F L S ++ + +
Sbjct: 20 NFDTSLLESKKYNEKVDLIFDLKSIVKDKDTKTNT----LNFSVTLSSKGTQTKTNEILK 75
Query: 648 KTRISTINTDSILHND-----DDAGLLAYYVFHKMIDRALKINRGFLCFIDEFKSYAQNE 702
+ + D + G + Y++ HK LK F FK +
Sbjct: 76 ECSNQGVKLDEEILKKAFVKFKKQGSMDYFI-HKNAQGFLKEQLDLYLFEYLFKEMTAFD 134
Query: 703 MMNKKINEIITQARKANGVIVLALQDINQLSEVRNAQSFIKNMGQLIL------------ 750
+K++N I T A VI L + N+L ++ N + N ++
Sbjct: 135 --HKRLNGINTIKEVALEVIALVSEFENELCKIWNKPRLVLNSHFIVSLDKLKAKNYDLS 192
Query: 751 -------YPQRNIDTKDLNDKFGIRLSDTEKHFLENTAVNEYKVLLKNMNDGSSNIIDVS 803
YP++ + +DLN + L E L+ + + +K++ + N I+ +
Sbjct: 193 KITNHPNYPKQVKEWQDLNLEIADNLLGNEFLPLDTLYFKDLEEEVKSL--FNENEINGT 250
Query: 804 LSSLGNYLQIFSSNSSMVEHID 825
L NY + S + E ID
Sbjct: 251 LIKSENYQALNSLKNRYKEAID 272
>ref|NP_223534.1| putative [Helicobacter pylori J99]
Length = 614
Score = 28.5 bits (62), Expect = 0.75
Identities = 17/68 (25%), Positives = 37/68 (54%), Gaps = 12/68 (17%)
Query: 181 SKKDKKNKFKKKITFSTKSKRAL--------LIQT----IERVKNALKEFKPTLLNSKEV 228
++++ KN +K KSK+ + L++ +E++KNA +E K +L+ + V
Sbjct: 455 NQEELKNAKQKLNALGVKSKKIIAQHQSLNHLVKNNQVIMEKLKNATEEIKRSLMQQESV 514
Query: 229 LNFYAEYI 236
+ Y+E++
Sbjct: 515 KDAYSEFV 522
>ref|NP_223495.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 587
Score = 28.5 bits (62), Expect = 0.75
Identities = 10/26 (38%), Positives = 19/26 (72%)
Query: 369 KLDKSLKEILSLLNNAGLGSVTETIG 394
++DKS + IL ++N GLG++ + +G
Sbjct: 108 EIDKSQQNILGIINTIGLGNILKALG 133
>ref|NP_223197.1| cag island protein [Helicobacter pylori J99]
Length = 252
Score = 28.5 bits (62), Expect = 0.75
Identities = 27/102 (26%), Positives = 48/102 (46%), Gaps = 12/102 (11%)
Query: 496 SYLMMSALKYSNIDILALDRLNGLYSFTKYFDGIYNQGENFHINPFSLEDSATNR-AFLL 554
S +MM LK ++I + +DR G + K D +N ++ DSAT++ LL
Sbjct: 52 SIVMMMPLKKTDIFVYGIDRYTGEFKIVKRSDA------RQIVNSEAVVDSATSKFVSLL 105
Query: 555 HFYAQMAKVDSYDDHKDKVEDRTALLNAIDTMYRNYNDEVKQ 596
Y++ +S D KD++ + M R +N+ ++Q
Sbjct: 106 FGYSK----NSLRDRKDQLMQYCDVSFQTQAM-RMFNENIRQ 142
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 28.5 bits (62), Expect = 0.75
Identities = 13/40 (32%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 145 KKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKD 184
++LE + +E++E+S + QEN+ + ET NT + +D
Sbjct: 273 QELEAMQELVKEIQENSND--QENKKETQETQENTETPQD 310
>ref|NP_222962.1| putative [Helicobacter pylori J99]
Length = 222
Score = 28.5 bits (62), Expect = 0.75
Identities = 20/90 (22%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 140 SFFEKKKLEMTTSINE--ELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFST 197
+ FE KK E+ + + E E+S + + EN +E + K+ + ++ K +
Sbjct: 28 AIFESKKAELKEDLRQLSEKEQSLRILQTENARLLDEKSDLLNKKEKEIDEKLKNLAAKE 87
Query: 198 KSKRALLIQTIERVKNALKEFKPTLLNSKE 227
++ + L + +R+KN ++E + L K+
Sbjct: 88 EAFKTLQTEEKKRLKNLIEENEGILREIKQ 117
>ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrophosphorylase
[Helicobacter pylori J99]
Length = 470
Score = 28.5 bits (62), Expect = 0.75
Identities = 34/130 (26%), Positives = 56/130 (42%), Gaps = 28/130 (21%)
Query: 491 KTTLISYLMMSALKYSNIDILALDR--------LNGLYSFTKYFDGIYNQG-----ENFH 537
K +S M L+ +IDI + + LN +S F+ ++ + EN
Sbjct: 227 KIARLSEKSMQDLEDMSIDIALMQQSHKIKMVELNAKWSDLGNFNALFEEAANGTKENVS 286
Query: 538 IN--PFSLEDSATNRAFLLHFYA-----QMAKVDSYDD----HKDKVEDRTALLNAIDTM 586
+N P ++S N F A +A +D+ D HKDK +D AL++ I+T
Sbjct: 287 LNQTPIFAKESTNNLVFSHKVSALLGVEDLAIIDTKDALLVAHKDKAKDLKALVSEIET- 345
Query: 587 YRNYNDEVKQ 596
+N E+ Q
Sbjct: 346 ---HNQELLQ 352
>ref|NP_223609.1| 3-DEOXY-D-MANNO-OCTULOSONIC-ACID TRANSFERASE [Helicobacter pylori
J99]
Length = 393
Score = 28.1 bits (61), Expect = 0.98
Identities = 16/37 (43%), Positives = 20/37 (53%)
Query: 491 KTTLISYLMMSALKYSNIDILALDRLNGLYSFTKYFD 527
KTTL S S+ + DIL +DRL L +F K D
Sbjct: 273 KTTLFSLECFSSKGFVECDILLVDRLGELNNFYKIAD 309
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 28.1 bits (61), Expect = 0.98
Identities = 11/36 (30%), Positives = 21/36 (57%)
Query: 143 EKKKLEMTTSINEELEESSKEDKQENENSSNETHSN 178
+K+ S++EE ++ ++ED QEN ET ++
Sbjct: 99 DKRPFTQQKSLDEETQKLNEEDDQENNEHQEETQTD 134
Score = 26.6 bits (57), Expect = 2.8
Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 778 ENTAVNEYKVLLKNMNDGSSNIIDVSLSSLGNYLQIFSSNSSMVEHIDNLIKHYPKTWRE 837
E T N ++ LLK + S N +D S N H+DN + + +
Sbjct: 156 EATEANHFEDLLKESTESSDNHLDNPTESSDN-------------HLDNPTETKTQETKT 202
Query: 838 VFVSNKHENFDDKKHLEKVLK 858
F +K E D + ++++K
Sbjct: 203 HFDEDKPEEITDDSNDQEIIK 223
>ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 455
Score = 28.1 bits (61), Expect = 0.98
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 8/51 (15%)
Query: 482 MIIGATGAGKTTLIS-----YLMMSALKYSNIDILALD--RLNGLYSFTKY 525
M++G TG GKTT ++ Y M A KY + I+ LD R+ L + Y
Sbjct: 256 MLVGPTGVGKTTTLAKLAARYSRMLAKKY-KVGIITLDNYRIGALEQLSWY 305
>ref|NP_222954.1| putative [Helicobacter pylori J99]
Length = 362
Score = 27.7 bits (60), Expect = 1.3
Identities = 25/105 (23%), Positives = 52/105 (48%), Gaps = 17/105 (16%)
Query: 287 SEEISSLPISTLLHTQIEL-DLIFHIRSLGQFESLNFLKTKKKLTLSKIVKADIDNYIEL 345
++E+S LP + + + I+L +++ + Q E + + + S+ VK +++ +
Sbjct: 207 NKEVSKLPNTPVELSSIQLREIVLPAKIKEQIEKVQIARQE-----SERVKYEVERSKQE 261
Query: 346 VQ-----------ANRLSMQECALNLVIRAKSKAKLDKSLKEILS 379
Q ANR+ Q A +VI AK+K++ + S+ + LS
Sbjct: 262 AQKQAALAKGEADANRIKAQGVADAIVIEAKAKSQANLSISQSLS 306
>ref|NP_222936.1| 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSFERASE [Helicobacter
pylori J99]
Length = 243
Score = 27.7 bits (60), Expect = 1.3
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 189 FKKKITFSTKSKRALLIQTIERVKNALKEFKPTLL 223
++KKI ++ I T E ++NALK F P LL
Sbjct: 207 YQKKILVKIVQSESMGIDTKEDLQNALKIFSPNLL 241
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 27.3 bits (59), Expect = 1.7
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 1/80 (1%)
Query: 779 NTAVNEYKVLLKNMNDGSSNIIDVSLSSLGNYLQIFSSNSSMVEHIDNLIKHYPKTWREV 838
+T+ E +K M + +N D +L L ++ +NS +NL K +T R
Sbjct: 304 DTSYQESTDTIKKMKEDYTNKTDEALERLDEIIKTEQNNSQTKLDTENL-KRIIETLRSK 362
Query: 839 FVSNKHENFDDKKHLEKVLK 858
+N+ + D K + + K
Sbjct: 363 IKANQQKMIDKSKEMSRNFK 382
>ref|NP_223035.1| putative [Helicobacter pylori J99]
Length = 266
Score = 27.3 bits (59), Expect = 1.7
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 5/55 (9%)
Query: 61 SNLMQK-DLEGYFDARQNVLNTISKDIQLRIVAKRRKEFIN---QSPNIDNIYAK 111
+ L++K +G F+ QN +NT+ KD L+ + + + EF+ ++P+ + Y K
Sbjct: 189 NELLEKGQAQGIFNI-QNFINTLLKDYHLKEMPEMKDEFLEYCAKNPSYEEAYLK 242
>ref|NP_223640.1| Component of conjugal plasmid transfer system [Helicobacter pylori
J99]
Length = 511
Score = 26.9 bits (58), Expect = 2.2
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 127 YFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKK 186
Y+L T TS +S+F + + S+ +K+E E + +T ++ +K+DK
Sbjct: 170 YYLFSTTYTSKFQSYFSVFVSNKRSIGKLNILSKSELEKREQEXLA-KTETDNFNKQDKH 228
Query: 187 NKFKKKITFSTK 198
+KI + +K
Sbjct: 229 KLDYRKINYESK 240
>ref|NP_223418.1| FUNCTIONAL HOMOLOG OF SRP RECEPTOR [Helicobacter pylori J99]
Length = 293
Score = 26.9 bits (58), Expect = 2.2
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 482 MIIGATGAGKTTLISYLMMSALK 504
+I+G GAGKTT I+ L +LK
Sbjct: 90 LIVGVNGAGKTTTIAKLAKLSLK 112
Score = 25.4 bits (54), Expect = 6.3
Identities = 50/226 (22%), Positives = 100/226 (44%), Gaps = 27/226 (11%)
Query: 592 DEVKQAKFSN------QELPLPFDLK-EFVNAIAKTNTDILDSSFEDYLKSSLFSSRMDS 644
+EVK+ K + +E+ + FD++ + + ++ K D++ + + L R +S
Sbjct: 15 EEVKEKKRESVPKEELEEILIGFDIQYDLIESLLKHLGDLITPKQLEV--ALLRFVRGES 72
Query: 645 LDFKTRISTINTDSILH---NDDDAGLLAYYVFHKMIDRALKIN-RGFLCFIDEFKSYA- 699
KTR+ TI T ++H + AG K+ +LK + + L D F++ A
Sbjct: 73 YYDKTRLKTITTKPLVHLIVGVNGAGKTT--TIAKLAKLSLKQHKKALLGAGDTFRAAAV 130
Query: 700 -QNEMMNKKINEIITQARKANGVIVLALQDINQLSEVRNAQSFIKNMGQLILYPQRNIDT 758
Q ++ +K+N + A++ + LA I + FI G+ L+ Q N+
Sbjct: 131 KQLQLWGEKLNVQVISAKEGSDPSSLAYNTIESAIAKNIDEVFIDTAGR--LHNQTNL-K 187
Query: 759 KDLNDKFGIRLSDTEKHFLENTAVNEYKVLLKNMNDGSSNIIDVSL 804
+L+ +++ T L++ YK L+ + GSS + +
Sbjct: 188 NELS-----KIAHTCSKVLKDAPF--YKFLILDGTQGSSGLTQAKI 226
>ref|NP_223308.1| LYTIC MUREIN TRANSGLYCOSYLASE [Helicobacter pylori J99]
Length = 560
Score = 26.9 bits (58), Expect = 2.2
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 14/100 (14%)
Query: 144 KKKLEMTTSINEELEESSKEDKQENENSSNET---------HSNTSSKKDKKNKFKKK-I 193
KK E+T + N L+++ +E EN + S + S + + F+ I
Sbjct: 54 KKAYELTQNKNSALQKAMQEKGVENSDKSPDAKMPEDIYCKQITLESMLETTDAFQASCI 113
Query: 194 TFSTKSK----RALLIQTIERVKNALKEFKPTLLNSKEVL 229
+ KSK + IQT + ++ +KE P L E+L
Sbjct: 114 AIALKSKIRDFDKIPIQTFKPLQEKIKEAYPILYEELEIL 153
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 26.6 bits (57), Expect = 2.8
Identities = 23/104 (22%), Positives = 43/104 (41%), Gaps = 3/104 (2%)
Query: 630 EDYLKSSLFSSRMDSLDFKTRISTINTDSILHNDDDAGLLAYYVFHKMIDRALKINRGFL 689
E+ L ++ + ++ LDFK S + +L A + A+ V + + F
Sbjct: 21 EEELNANEINDPLEMLDFK---SFDDNKELLDYQQQALINAFRVLVAYFRDFKESKKEFY 77
Query: 690 CFIDEFKSYAQNEMMNKKINEIITQARKANGVIVLALQDINQLS 733
F + S+A + KK+N ++ K V IN+L+
Sbjct: 78 AFYQKHYSFANCDFAKKKLNHLLKSHFKVENHCVRFENFINRLA 121
>ref|NP_223966.1| CATION EFFLUX SYSTEM PROTEIN [Helicobacter pylori J99]
Length = 341
Score = 26.6 bits (57), Expect = 2.8
Identities = 33/141 (23%), Positives = 58/141 (40%), Gaps = 26/141 (18%)
Query: 707 KINEIITQARKANGVIVLALQDINQLSEVRNAQSFIKNMGQLILYPQRNIDTKDLNDKFG 766
K+ IT + NGVI D+N+ S ++ Q K + L+ ++ +DL
Sbjct: 149 KVQNEITIYSRFNGVIFKKSPDLNEGSFIKKGQELFKIIDLSRLWALVKVNQEDL----- 203
Query: 767 IRLSDTEKHFLENTAVNEYKVLLKNMNDGSSNIIDVSLSSLGNYLQIFSSNSSMVE---H 823
FL+NT +L G I +L N I ++ M+E +
Sbjct: 204 --------EFLKNT---HQAILFVEGVKGKQAI------TLENINPIINAQDKMLEARFN 246
Query: 824 IDNL-IKHYPKTWREVFVSNK 843
+ NL + +YP + +V + +K
Sbjct: 247 VPNLKLLYYPNMFAQVEIFHK 267
>ref|NP_223830.1| putative [Helicobacter pylori J99]
Length = 383
Score = 26.6 bits (57), Expect = 2.8
Identities = 12/56 (21%), Positives = 26/56 (46%)
Query: 143 EKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTK 198
EK+K E E+ ++ ++++KQ+ N ++ K + K+K + K
Sbjct: 141 EKQKTEQEKQKTEQEKQKTEQEKQKTSNIETNNQIKVEQEQQKTEQEKQKTNNTQK 196
Score = 26.2 bits (56), Expect = 3.7
Identities = 15/58 (25%), Positives = 30/58 (50%), Gaps = 1/58 (1%)
Query: 143 EKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSK 200
EK+K E E+ ++ ++++KQ+ E +T SN + K + +++ T K K
Sbjct: 134 EKQKTEQEKQKTEQEKQKTEQEKQKTEQEKQKT-SNIETNNQIKVEQEQQKTEQEKQK 190
>ref|NP_223773.1| putative [Helicobacter pylori J99]
Length = 263
Score = 26.6 bits (57), Expect = 2.8
Identities = 15/70 (21%), Positives = 34/70 (48%)
Query: 143 EKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRA 202
+ +K+E T + E +E K+E E S + S+ + ++K +K +K + +
Sbjct: 61 KNEKIEKVTEKQGDFLEPKEEPKEEPEESLEDIFSSLNDFQEKTDKNAQKDEQKNEQEEQ 120
Query: 203 LLIQTIERVK 212
++ +R+K
Sbjct: 121 RRLREQQRLK 130
Score = 25.4 bits (54), Expect = 6.3
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 143 EKKKLEMTTSINEELEESSKE-DKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKR 201
E+ ++ +S+N+ E++ K K E +N E ++ K+N+ +++ +
Sbjct: 87 EESLEDIFSSLNDFQEKTDKNAQKDEQKNEQEEQRRLREQQRLKQNQENQEMLKGLQQNL 146
Query: 202 ALLIQTIERVKN 213
Q +E VKN
Sbjct: 147 NQFTQKLESVKN 158
>ref|NP_222996.1| DIAMINOPIMELATE DECARBOXYLASE [Helicobacter pylori J99]
Length = 405
Score = 26.6 bits (57), Expect = 2.8
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 120 KGIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNT 179
K ++ E L + NV+SF E K +E +I + L ++ + N N +TH
Sbjct: 92 KSAFEIEQALKLNILFLNVESFMELKTIE---TIAQSLGIKARISIRINPNIDAKTHPYI 148
Query: 180 SSKKDKKNKF 189
S+ K+NKF
Sbjct: 149 STGL-KENKF 157
>ref|NP_222888.1| abc transporter, ATP-binding protein [Helicobacter pylori J99]
Length = 213
Score = 26.6 bits (57), Expect = 2.8
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 11/43 (25%)
Query: 456 LFNFHNQEVKHKGVLAHNVARVVGHTMIIGATGAGKTTLISYL 498
L+N N +K K LA I+G +G+GK+TL+S+L
Sbjct: 15 LYNGVNLRIKPKESLA-----------ILGVSGSGKSTLLSHL 46
>ref|NP_222877.1| putative [Helicobacter pylori J99]
Length = 243
Score = 26.6 bits (57), Expect = 2.8
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 155 EELEESSKEDKQENENSSNETHSNTSSKKD 184
EE +E +KE+ +E++ +SN + T K+D
Sbjct: 25 EEAKEPTKEEPKESKENSNYSEKMTVKKED 54
>ref|NP_222756.1| DNA transformation competancy [Helicobacter pylori J99]
Length = 247
Score = 26.6 bits (57), Expect = 2.8
Identities = 15/52 (28%), Positives = 26/52 (49%)
Query: 683 KINRGFLCFIDEFKSYAQNEMMNKKINEIITQARKANGVIVLALQDINQLSE 734
K F+ F+++ K YA + +K I+ AR G VL + IN++ +
Sbjct: 79 KTEHHFVDFLNQDKHYAIIQRADKSISSNEALARSLIGAYVLNRESINRIDD 130
>ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 779
Score = 26.2 bits (56), Expect = 3.7
Identities = 23/73 (31%), Positives = 33/73 (44%), Gaps = 13/73 (17%)
Query: 486 ATGAGKTTLISYLMMSALK--YSNI-------DILALDRLNGLYSFTKYFDGIYNQGENF 536
ATG+GKT +++ L++ K Y N IL +LN FT Y EN
Sbjct: 5 ATGSGKTLVMAGLILECYKQGYQNFIFFVNSASILEKTKLN----FTDSVSSKYLFSENI 60
Query: 537 HINPFSLEDSATN 549
+IN + E + N
Sbjct: 61 NINDENTEIKSIN 73
Score = 25.8 bits (55), Expect = 4.9
Identities = 41/164 (25%), Positives = 66/164 (40%), Gaps = 29/164 (17%)
Query: 613 FVNA---IAKTNTDILDSSFEDYLKSSLFSSRMDSLDFKTRISTINTDSILHNDDDAGLL 669
FVN+ + KT + DS YL FS ++ D T I +IN + HN+
Sbjct: 32 FVNSASILEKTKLNFTDSVSSKYL----FSENININDENTEIKSINNLNESHNN------ 81
Query: 670 AYYVFHKMIDRALKINRGFLCFIDEFKSYA--QNEMMNKKINEIITQARKANGVIVLALQ 727
A ++ I +G K A ++ ++K+ + +A N L
Sbjct: 82 AINIYFSTI-------QGLFSLFTRAKENAITLEDLKDQKLVFLADEAHHLNTETKKKLN 134
Query: 728 DINQLSEVRNAQSFIK-----NMGQLILYPQRNI-DTKDLNDKF 765
D ++ SE RN +S +K N L+L I K + DK+
Sbjct: 135 D-SEASEKRNWESVVKLALEQNKDNLLLEFSATIPKEKSVEDKY 177
>ref|NP_223891.1| putative [Helicobacter pylori J99]
Length = 595
Score = 26.2 bits (56), Expect = 3.7
Identities = 25/113 (22%), Positives = 49/113 (43%), Gaps = 5/113 (4%)
Query: 538 INPFSLEDSATNRAFLLHFYAQMAKVDS-YDDHKDKVEDRTALLNAIDTMYRNYNDEVKQ 596
+NPF+L+ + L++ + +D + ++ +D A D Y + + K+
Sbjct: 61 LNPFALKGTKAEGLDLIYDTLMVQSLDEPFAEYPLIAKDAEV---AKDNSYVIFTLD-KR 116
Query: 597 AKFSNQELPLPFDLKEFVNAIAKTNTDILDSSFEDYLKSSLFSSRMDSLDFKT 649
A+FSN L D+K + I K + + ++D K+ + FKT
Sbjct: 117 ARFSNNAPILASDVKFSFDTIMKLGSPLYRQYYQDVKKAVILDKHHVKFIFKT 169
>ref|NP_223810.1| glucose-6-phosphate isomerase [Helicobacter pylori J99]
Length = 545
Score = 26.2 bits (56), Expect = 3.7
Identities = 9/41 (21%), Positives = 21/41 (50%)
Query: 810 YLQIFSSNSSMVEHIDNLIKHYPKTWREVFVSNKHENFDDK 850
Y+ F S S ++ D ++H+PK +++ + + + K
Sbjct: 320 YINFFQSKSHLIAPYDQYLRHFPKFIQQLDMESNGKRISKK 360
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 26.2 bits (56), Expect = 3.7
Identities = 39/227 (17%), Positives = 88/227 (38%), Gaps = 29/227 (12%)
Query: 579 LLNAIDTMYRNYNDEVKQAKFSNQELPLPFDLKEFVNAIAKTNTDILDSSFEDYLKSSLF 638
+++A++++ + N + +A+ N + L++ ++I KT + S L ++
Sbjct: 160 IISAVNSLNPSNNSQEVKAQLQNTAQSMAELLQQIEHSITKTTSTTYAQSLLSNLTDAVN 219
Query: 639 SSRMDSLDFKTRISTINTDSILHNDDDAGLLAYYVFHKMIDRALKINR-GFLCFIDEFKS 697
+S ++ ++ +NT L VF + +N G + F
Sbjct: 220 ASSNNTTYVSALVNALNT------------LGVGVFPTTTSTHVVLNPPGQVVF------ 261
Query: 698 YAQNEMMNKKINEIITQARKANGVIVLALQDI----NQ------LSEVRNAQSFIKNMGQ 747
Y N ++ + Q + N +++ LQ NQ ++++ + FI+N+
Sbjct: 262 YPTNSLLGSTSSNSNNQQQYNNTLLMNTLQGELSTNNQNNPNGCANQIQCLEQFIQNLTP 321
Query: 748 LILYPQRNIDTKDLNDKFGIRLSDTEKHFLENTAVNEYKVLLKNMND 794
L P +L + L+N A+N L N+++
Sbjct: 322 LAATPTSTNQANQQVQAIAQKLQSVAINALDNNAINNTTYNLNNLHN 368
>ref|NP_223778.1| ATP synthase F1, subunit gamma [Helicobacter pylori J99]
Length = 301
Score = 26.2 bits (56), Expect = 3.7
Identities = 17/55 (30%), Positives = 31/55 (55%), Gaps = 3/55 (5%)
Query: 605 PLPFDLKEFVNAIAKTNTD-ILDSSFEDYLKSSLFSSRMDSL--DFKTRISTINT 656
P P + +E + + + D ILDS E Y++ SL+ + +DSL + R+ ++T
Sbjct: 208 PQPSETQETITSEPSGSEDEILDSLAEKYVEYSLYYALIDSLAAEHSARMQAMDT 262
>ref|NP_223651.1| putative [Helicobacter pylori J99]
Length = 339
Score = 26.2 bits (56), Expect = 3.7
Identities = 18/80 (22%), Positives = 35/80 (43%)
Query: 155 EELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERVKNA 214
+ELE +E +++ +++ + +T K K + +KK K++ I V
Sbjct: 7 DELENKFEEQEEQAQDTPLKQEPSTKEVKIPKKRGRKKSLLDEDKKKSFNIAFSPCVIKE 66
Query: 215 LKEFKPTLLNSKEVLNFYAE 234
L EF + KE + + E
Sbjct: 67 LNEFLLEFGSFKETRSTFIE 86
>ref|NP_223642.1| putative [Helicobacter pylori J99]
Length = 195
Score = 26.2 bits (56), Expect = 3.7
Identities = 26/85 (30%), Positives = 38/85 (44%), Gaps = 13/85 (15%)
Query: 147 LEMTTSINEELEESS----KEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRA 202
L+ TS E LE+ +E K+E+ +NE + S + + FKK ++FS +
Sbjct: 97 LDAFTSSLENLEKQKINPIREQKRESGWQNNEDNKENS---ELEKAFKKDLSFSQSNPIP 153
Query: 203 LLIQTIERVKNALKEFKPTLLNSKE 227
L K KE K L SKE
Sbjct: 154 L------DKKETSKEEKEEELESKE 172
>ref|NP_223345.1| FERROUS IRON TRANSPORT PROTEIN B [Helicobacter pylori J99]
Length = 642
Score = 26.2 bits (56), Expect = 3.7
Identities = 15/66 (22%), Positives = 31/66 (46%)
Query: 483 IIGATGAGKTTLISYLMMSALKYSNIDILALDRLNGLYSFTKYFDGIYNQGENFHINPFS 542
++G GK++LI+ L + LK N + +D++ + I + + +N F+
Sbjct: 8 LVGQPNVGKSSLINALSNAHLKVGNFAGVTVDKMEVSLIHKDHQITIIDLPGTYALNDFT 67
Query: 543 LEDSAT 548
E+ T
Sbjct: 68 TEEKVT 73
>ref|NP_223204.1| cag island protein [Helicobacter pylori J99]
Length = 306
Score = 26.2 bits (56), Expect = 3.7
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 158 EESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFS-TKSKRALLIQTIERVKNALK 216
E+ KE +QEN N + T+++ D K K TFS +SK L I +++ ++
Sbjct: 244 EKRKKEMEQEN-NYQDTTNASEFGTTDTKENEAKDATFSNNRSKSELPNSVINQIEQSIA 302
Query: 217 EFK 219
K
Sbjct: 303 HGK 305
>ref|NP_223020.1| putative abc transporter, ATP-binding protein [Helicobacter pylori
J99]
Length = 233
Score = 26.2 bits (56), Expect = 3.7
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 481 TMIIGATGAGKTTLISYLM 499
T IIG GAGK+TLI+ ++
Sbjct: 30 TAIIGTNGAGKSTLINTIL 48
>ref|NP_224048.1| putative [Helicobacter pylori J99]
Length = 187
Score = 25.8 bits (55), Expect = 4.9
Identities = 31/121 (25%), Positives = 51/121 (41%), Gaps = 11/121 (9%)
Query: 481 TMIIGATGAGKTTLISYLMMSALKYSNIDILALDRL-----NGLYSFTKYFDGI--YNQG 533
T II A L ++ +S + + LDR+ N L D I +N+
Sbjct: 3 TYIIDADNIDGDLFFYNLTRNSNDFSMLPVFELDRIAQKIRNILKKHGSRKDIILKHNEI 62
Query: 534 ENFHINPFSLEDSATNRAFLLHFYAQMAKVDSYDDHKDKVEDRTALLNAIDTMYRNYNDE 593
+ +PF + T + FL H +A K KD +E +T ID+++ +Y D+
Sbjct: 63 KEAFFSPFKPQ-LKTVQVFLSHSHADKNKALGV---KDYLESKTKRKVFIDSLFWDYKDD 118
Query: 594 V 594
V
Sbjct: 119 V 119
>ref|NP_223739.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 511
Score = 25.8 bits (55), Expect = 4.9
Identities = 18/44 (40%), Positives = 20/44 (44%), Gaps = 3/44 (6%)
Query: 630 EDYLKSSLFSSRMDSLDFKTRISTINTDSILHNDDDAGLLAYYV 673
E YL F R +SLDFK + N DS L D LL V
Sbjct: 44 ERYLSVKTFKLRFNSLDFKAQ---ANDDSTLILKGDFSLLTQSV 84
>ref|NP_223319.1| putative [Helicobacter pylori J99]
Length = 353
Score = 25.8 bits (55), Expect = 4.9
Identities = 13/23 (56%), Positives = 17/23 (73%), Gaps = 1/23 (4%)
Query: 368 AKLDK-SLKEILSLLNNAGLGSV 389
+K+ K SLKE+L L NAGL S+
Sbjct: 135 SKISKLSLKEVLERLKNAGLSSI 157
>ref|NP_223242.1| METHYLENETETRAHYDROFOLATE DEHYDROGENASE/METHENYLTETRAHYDROFOLATE
CYCLOHYDROLASE [Helicobacter pylori J99]
Length = 290
Score = 25.8 bits (55), Expect = 4.9
Identities = 36/205 (17%), Positives = 79/205 (37%), Gaps = 37/205 (18%)
Query: 335 VKADIDNYIELVQANRLSMQECAL-------------NLVIRAKSKAKLDKSLKEILSLL 381
++ D+ N I+++ A + A+ N+ I+A + +D LK + +
Sbjct: 18 IEKDLKNKIQIITAQTHKRPKLAVILVGKDPASITYVNMKIKACQRVGMDFDLKTLKENI 77
Query: 382 NNAGLGSVTETIGLKPSYFSFFPNNANINPRMRHQTSQVIASLILFEKNNTGFRANSWGD 441
A L S+ + + P R +++I I K+ GF + G
Sbjct: 78 TEAELLSLIKDYNTDQNISGILVQL----PLPRSIDTKMILEAIDPNKDVDGFHPLNIGK 133
Query: 442 M-----------PLSVFKNLDHSPYLFNFHNQEVKHKGVLAHNVARVVGHTMIIGATGAG 490
+ P+ V + L+H ++ E+K K V + ++G + + AG
Sbjct: 134 LCTQKESFLPATPMGVMRLLEH-------YHIEIKGKDVAIIGASNIIGKPLSMLMLNAG 186
Query: 491 KTTLISYLMMSALKY--SNIDILAL 513
+ + +++ + + N DI+ +
Sbjct: 187 ASVSVCHILTKDISFYTKNADIVCV 211
>ref|NP_223055.1| putative [Helicobacter pylori J99]
Length = 778
Score = 25.8 bits (55), Expect = 4.9
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 5/75 (6%)
Query: 220 PTLLNSKEVLN--FYAEYINGKYIAFNPKLKRLSDSYIASNVHFKKDYFVIEFQNQNTFC 277
PTLL+ K + +Y + N K +A + S++ ASN+ + D ++ T
Sbjct: 451 PTLLDKKNLQKHYYYQLFKNSKEVALS---YIESETLKASNMLLELDLHTEPIKDAYTLF 507
Query: 278 ACVGIKAYESEEISS 292
IK Y+ EEI +
Sbjct: 508 ETSPIKEYQEEEIKA 522
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 25.8 bits (55), Expect = 4.9
Identities = 15/49 (30%), Positives = 28/49 (56%), Gaps = 1/49 (2%)
Query: 480 HTMIIGATGAGKTTLISYLMMSALKYSNIDILALDRLN-GLYSFTKYFD 527
H +I G TG+GK+ ++ +++S L + D L L ++ + F+ Y D
Sbjct: 530 HLLIAGTTGSGKSVGVNAMILSLLYKNPPDQLKLVMIDPKMVEFSIYAD 578
>ref|NP_222761.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [Helicobacter pylori J99]
Length = 310
Score = 25.8 bits (55), Expect = 4.9
Identities = 15/37 (40%), Positives = 20/37 (53%), Gaps = 2/37 (5%)
Query: 185 KKNKFKKKITFSTKSKRALLIQTIERVKNALKEFKPT 221
KKNK +T T K L + + V+ LKE+KPT
Sbjct: 23 KKNK--PDVTLLTPKKSELYLLDKDNVQAYLKEYKPT 57
>ref|NP_224110.1| putative [Helicobacter pylori J99]
Length = 306
Score = 25.4 bits (54), Expect = 6.3
Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 481 TMIIGATGAGKTTLISYLMMSALKYSNIDILALDRLNGLYSFTKYFDGIYNQGENF 536
T IIG+ K L + ++ + ++ + L +LN +Y+ KY D ++ E +
Sbjct: 117 TSIIGSANLTKGGLENNFEVNTI-FTEKEPLYYSQLNAIYNSIKYADSLFTPNEEY 171
>ref|NP_223539.1| IRON(III) DICITRATE TRANSPORT SYSTEM ATP-BINDING PROTEIN
[Helicobacter pylori J99]
Length = 255
Score = 25.4 bits (54), Expect = 6.3
Identities = 22/76 (28%), Positives = 31/76 (39%), Gaps = 8/76 (10%)
Query: 481 TMIIGATGAGKTTLISYLM-------MSALKYSNIDILALDRLNGLYSFTKYFDGIYNQG 533
T I+ G+GKTTL+ L+ + +K N DIL L Y +
Sbjct: 31 TSILAPNGSGKTTLLKCLLGLLKPLEETEIKACNKDILPLKPYEKA-KLIAYIPQVEYYA 89
Query: 534 ENFHINPFSLEDSATN 549
NF + F L AT+
Sbjct: 90 FNFSVLDFVLMGKATH 105
>ref|NP_223498.1| putative [Helicobacter pylori J99]
Length = 245
Score = 25.4 bits (54), Expect = 6.3
Identities = 13/31 (41%), Positives = 17/31 (53%)
Query: 193 ITFSTKSKRALLIQTIERVKNALKEFKPTLL 223
I K K+ L T++R K LKE + TLL
Sbjct: 188 IYLKEKEKQLFLKTTLQRTKEVLKEAQNTLL 218
>ref|NP_223372.1| putative [Helicobacter pylori J99]
Length = 133
Score = 25.4 bits (54), Expect = 6.3
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 479 GHTMIIGATGAGKTTLISYLMMSALKYSNIDILA 512
G ++ G G+GKTTL+ + LK+ +DI A
Sbjct: 22 GVVLLKGVVGSGKTTLV----QACLKHLGLDIQA 51
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 25.4 bits (54), Expect = 6.3
Identities = 30/130 (23%), Positives = 51/130 (39%), Gaps = 25/130 (19%)
Query: 139 KSFFEKKKLEM-----TTSINEELEESSKEDKQENENSSN-----------------ETH 176
KSF EK+ +E + +N+ L++ ++E E ++ ET
Sbjct: 494 KSFQEKRDMEKGFKQSSLKLNKNLKDLEPFGEKEIEKRASDLVDWALKIWTYPILEAETL 553
Query: 177 SNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERVKNALKEFKPTLLNSKEVLNF---YA 233
KK+KK K +KK K K+ + + K + + + KE+
Sbjct: 554 EEYKPKKEKKEKKEKKEKEEYKLKKEKKVYDLSSYKFSPHSRELFDILRKEIKTLDERVT 613
Query: 234 EYINGKYIAF 243
E N KYIA+
Sbjct: 614 ENFNSKYIAY 623
>ref|NP_223081.1| GLUCOSE INHIBITED DIVISION PROTEIN B [Helicobacter pylori J99]
Length = 178
Score = 25.4 bits (54), Expect = 6.3
Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 320 LNFLKTKKKLTLSKIVKADIDNYIELVQANRLSMQECALNLVIRAKSK 367
LN+LK+ L +I+K +++Y L+Q + ++ + A + + KS+
Sbjct: 86 LNYLKSVLPLNNIEIIKKRLEDYQNLLQVDLITSRAVASSSFLIEKSQ 133
>ref|NP_222782.1| putative [Helicobacter pylori J99]
Length = 117
Score = 25.4 bits (54), Expect = 6.3
Identities = 19/77 (24%), Positives = 37/77 (47%), Gaps = 8/77 (10%)
Query: 132 ETITSNVKSFFEKKKLEMTTS-----INEELEESSKEDKQ---ENENSSNETHSNTSSKK 183
E + + +K + + LE T INE+LEE+ + +KQ ++ +S +E K
Sbjct: 39 EALENMLKIAHDLENLEQETQYEMRKINEQLEEAKRLEKQVDMQDRHSQSEIDRLMREAK 98
Query: 184 DKKNKFKKKITFSTKSK 200
+ + + K++ K K
Sbjct: 99 EHEREAKRRYGEYLKDK 115
>ref|NP_222780.1| putative [Helicobacter pylori J99]
Length = 500
Score = 25.4 bits (54), Expect = 6.3
Identities = 14/49 (28%), Positives = 27/49 (54%), Gaps = 5/49 (10%)
Query: 19 GFVPKTYSMAQECNILGLYDDAFIITKQENLVGIISLQGLS-YSNLMQK 66
GF+P+ Y + N+LG + ++E L+G+ +G S ++ +QK
Sbjct: 454 GFIPRGYLWHFDANVLG----NLALVREELLLGVKHTKGYSLWTEFLQK 498
>ref|NP_222772.1| putative [Helicobacter pylori J99]
Length = 220
Score = 25.4 bits (54), Expect = 6.3
Identities = 29/139 (20%), Positives = 54/139 (37%), Gaps = 8/139 (5%)
Query: 115 TQFESKGIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNE 174
T F K TE E + N EK++LE +E+ ++K E + NE
Sbjct: 20 TNFHEKHTKPTE---TTELVEENKALTTEKERLERENKNLTADKENLTKEKTELQKQVNE 76
Query: 175 THSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERVKNALKEFKPTLLNSKEVLNFYAE 234
++ +++K + ++ TK + + + + K L E L KE L E
Sbjct: 77 LKNSKQVLENEKADWLREKENLTKDR-----ENLTKEKTELTEKNKVLTTEKERLATEKE 131
Query: 235 YINGKYIAFNPKLKRLSDS 253
+ + ++ L +S
Sbjct: 132 NLTKEKTESQKQVNELKNS 150
>ref|NP_224034.1| DNA transfer protein [Helicobacter pylori J99]
Length = 304
Score = 25.0 bits (53), Expect = 8.3
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 448 KNLDHSPYLFNFHNQE-VKHKGVLAHNVARVVGHTMIIGATGAGKTTLISYLM 499
K L + F N E +K+ + HN+ +I G T +GKT+L++ L+
Sbjct: 114 KPLSLEDFTFKVSNPESLKNLALKGHNI-------LISGETSSGKTSLLNALL 159
>ref|NP_223732.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [Helicobacter pylori J99]
Length = 378
Score = 25.0 bits (53), Expect = 8.3
Identities = 12/37 (32%), Positives = 20/37 (53%)
Query: 96 KEFINQSPNIDNIYAKAIITQFESKGIYKTEYFLVFE 132
K+F P +D KA++ SK + + +Y L+FE
Sbjct: 2 KKFAYSEPCLDEEDKKAVLEVLNSKQLTQGKYSLLFE 38
>ref|NP_223476.1| osmoprotection ATP-binding protein [Helicobacter pylori J99]
Length = 216
Score = 25.0 bits (53), Expect = 8.3
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 8/86 (9%)
Query: 457 FNFHNQEVKHKGVLAHNVARVVGHTM-IIGATGAGKTTLISYLMMSALKYSNIDILALDR 515
FN+HN+ + N++ G + ++G +G+GK+TL+ L++ LK S + +
Sbjct: 12 FNYHNRAIFKD----FNLSIQEGDFLCVLGESGSGKSTLLG-LILGLLKPSLGSVKIFNE 66
Query: 516 LNGLYSFTKYFDGIYNQGENF--HIN 539
+F + G QG + H+N
Sbjct: 67 TLSNNAFLRQKIGYIAQGNSLFPHLN 92
>ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99]
Length = 451
Score = 25.0 bits (53), Expect = 8.3
Identities = 42/188 (22%), Positives = 75/188 (39%), Gaps = 18/188 (9%)
Query: 73 DARQNVLNTISKDIQLRIVAKRRKEFINQSPNIDNIYAKAIITQFESKGIYKTEYFLVFE 132
DA++ ++ + K+ L+ + K+ I SPN K T FE + + +V +
Sbjct: 65 DAQEEMIQEVLKNA-LKELGVETKDLIG-SPNFTKFEKKD--THFEIEADIGLKPTIVLD 120
Query: 133 TITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKK 192
I V S + E +NE L++ +K+ + + S N F
Sbjct: 121 KIQECVPSVGVEVPNE--EKVNERLKQLAKDYAKFVDTDSQRKAQNDDKLTIDFEGFIDN 178
Query: 193 ITFSTKSKRALLIQTIERVKNALKEFKPTLLN-----SKEV-----LNFYAEYINGKYIA 242
F + +A I K L++F+ LL KE ++AE++ GK
Sbjct: 179 APF--EGGKAENFSLILGSKQMLEDFEKALLGMQASEEKEFPLTFPSGYHAEHLAGKEAL 236
Query: 243 FNPKLKRL 250
F KL+++
Sbjct: 237 FKVKLRQI 244
>ref|NP_223310.1| putative [Helicobacter pylori J99]
Length = 135
Score = 25.0 bits (53), Expect = 8.3
Identities = 11/45 (24%), Positives = 22/45 (48%)
Query: 167 ENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERV 211
EN N + + + + KN+F ++ K K L ++TI+ +
Sbjct: 47 ENLNEQIKNLQSVPALEKLKNRFNERFKICPKDKETLWLETIQNL 91
>ref|NP_223206.1| cag island protein [Helicobacter pylori J99]
Length = 381
Score = 25.0 bits (53), Expect = 8.3
Identities = 21/101 (20%), Positives = 44/101 (42%), Gaps = 14/101 (13%)
Query: 51 GIISLQG--LSYSNLMQKDLEGYFDA------------RQNVLNTISKDIQLRIVAKRRK 96
G+ S+ G + S+++ +EGY A + +NT ++ ++I ++
Sbjct: 91 GVNSMTGGFFAGSDILLGVMEGYSSALSALGGNVKMIVEKQKINTQTEIQNMQIALQKNN 150
Query: 97 EFINQSPNIDNIYAKAIITQFESKGIYKTEYFLVFETITSN 137
E I N N +A+ FE KT+ ++ + + S+
Sbjct: 151 EIIKLKMNQQNALLEALKNSFEPSVTLKTQMEMLSQALGSS 191
Score = 25.0 bits (53), Expect = 8.3
Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 127 YFLVFETITSNVKSFFEKKKLEMTTSINEELEESSKEDKQENENSSNETHSNTSSKKDKK 186
Y + NVK EK+K+ T E++ ++ NE + + + + K
Sbjct: 113 YSSALSALGGNVKMIVEKQKINTQT----EIQNMQIALQKNNEIIKLKMNQQNALLEALK 168
Query: 187 NKFKKKITFSTK 198
N F+ +T T+
Sbjct: 169 NSFEPSVTLKTQ 180
>ref|NP_223192.1| cag island protein, DNA transfer protein [Helicobacter pylori J99]
Length = 330
Score = 25.0 bits (53), Expect = 8.3
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 465 KHKGVLAHNVARVVGHTMII-GATGAGKTTLISYLM 499
K + + A +G +I+ G TG+GKTT I +M
Sbjct: 157 KEQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIM 192
>ref|NP_222995.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2902
Score = 25.0 bits (53), Expect = 8.3
Identities = 23/94 (24%), Positives = 38/94 (39%), Gaps = 7/94 (7%)
Query: 153 INEELEESSKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTKSKRALLIQTIERVK 212
+NE S D +++S+N T K +K + TFS S ++IQ +E
Sbjct: 540 LNENAATSKPTDSSPSKSSTNSTQVYQVGYKIGDTIYKLQETFSHNS---IIIQALESGT 596
Query: 213 NALKEFKPTLLNSKEVLNFYAEYINGKYIAFNPK 246
P ++N + + YIN +N K
Sbjct: 597 YT----PPPVINGSKFDLSASNYINADMPWYNHK 626
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 25.0 bits (53), Expect = 8.3
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 1/75 (1%)
Query: 520 YSFTKYFDGIYNQGENFHINPFSLEDSATNRAFLLHFYAQMAKVDSYDDHKDKVEDRTAL 579
Y F K+ + + Q NF P + +D + F+ F +A + + D +D+ L
Sbjct: 24 YPFEKHVEALGEQCSNFVSIPINNDDYSNICTFVSDFINLIASYNLLESFLDFYKDKLKL 83
Query: 580 LNAIDTMYRNYNDEV 594
+ T Y N + +
Sbjct: 84 SELV-TEYANVTNNL 97
>ref|NP_222735.1| putative [Helicobacter pylori J99]
Length = 93
Score = 25.0 bits (53), Expect = 8.3
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 52 IISLQGLSYSNLMQKDLEGYFDARQNVLNT-ISKDIQLRI 90
I+ L G+ S+L + LEG+F+A + L + I+K I + I
Sbjct: 8 IVFLVGMCVSSLFAEGLEGFFNALEAQLKSPIAKGILMVI 47
Database: NC_000921.faa
Posted date: Dec 10, 2001 4:36 PM
Number of letters in database: 494,079
Number of sequences in database: 1491
Lambda K H
0.318 0.134 0.368
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 937,076
Number of Sequences: 1491
Number of extensions: 46794
Number of successful extensions: 328
Number of sequences better than 10.0: 81
Number of HSP's better than 10.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 240
Number of HSP's gapped (non-prelim): 122
length of query: 858
length of database: 494,079
effective HSP length: 86
effective length of query: 772
effective length of database: 365,853
effective search space: 282438516
effective search space used: 282438516
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)