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|15644696|ref|NP_206866.1| conserved hypothetical
ATP-binding protein [Helicobacter pylori 26695]
(831 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222783.1| putative [Helicobacter pylori J99] 1333 0.0
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 83 3e-17
ref|NP_223635.1| DNA transfer protein [Helicobacter pylori ... 37 0.002
ref|NP_223062.1| multi-drug resistance protein [Helicobacte... 33 0.022
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 33 0.038
ref|NP_222737.1| DNA transfer protein [Helicobacter pylori ... 31 0.15
ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N... 30 0.25
ref|NP_223711.1| PRIMOSOMAL PROTEIN N' (REPLICATION FACTOR ... 30 0.32
ref|NP_223796.1| putative SIGNAL RECOGNITION PARTICLE PROTE... 29 0.42
ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 29 0.42
ref|NP_223121.1| putative [Helicobacter pylori J99] 29 0.42
ref|NP_223117.1| putative [Helicobacter pylori J99] 29 0.42
ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT ... 29 0.55
ref|NP_223787.1| putative [Helicobacter pylori J99] 29 0.55
ref|NP_223671.1| putative [Helicobacter pylori J99] 29 0.55
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 29 0.55
ref|NP_224096.1| putative [Helicobacter pylori J99] 28 1.2
ref|NP_223645.1| putative [Helicobacter pylori J99] 27 2.1
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 27 2.1
ref|NP_224162.1| ELONGATION FACTOR TS (EF-TS) [Helicobacter... 27 2.7
ref|NP_223651.1| putative [Helicobacter pylori J99] 27 2.7
ref|NP_223610.1| putative [Helicobacter pylori J99] 27 2.7
ref|NP_223046.1| putative FLAGELLAR EXPORT APPARATUS [Helic... 27 2.7
ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 26 3.6
ref|NP_223362.1| EXCINUCLEASE ABC SUBUNIT A. [Helicobacter ... 26 3.6
ref|NP_223192.1| cag island protein, DNA transfer protein [... 26 3.6
ref|NP_223180.1| putative [Helicobacter pylori J99] 26 3.6
ref|NP_222912.1| putative [Helicobacter pylori J99] 26 3.6
ref|NP_224063.1| putative thiophene/furan oxidation protein... 26 4.7
ref|NP_223859.1| putative ABC transporter, ATP-binding prot... 26 4.7
ref|NP_223483.1| putative lipopolysaccharide biosynthesis p... 26 4.7
ref|NP_223066.1| putative [Helicobacter pylori J99] 26 4.7
ref|NP_223656.1| putative [Helicobacter pylori J99] 25 6.1
ref|NP_223591.1| putative [Helicobacter pylori J99] 25 6.1
ref|NP_223447.1| POLYPEPTIDE DEFORMYLASE [Helicobacter pylo... 25 6.1
ref|NP_223264.1| methyl-accepting chemotaxis protein (MCP) ... 25 6.1
ref|NP_223262.1| PENICILLIN-BINDING PROTEIN [Helicobacter p... 25 6.1
ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 ... 25 6.1
ref|NP_223039.1| putative [Helicobacter pylori J99] 25 6.1
ref|NP_223832.1| HISTIDYL-TRNA SYNTHETASE [Helicobacter pyl... 25 8.0
ref|NP_223515.1| putative [Helicobacter pylori J99] 25 8.0
ref|NP_223118.1| putative TRANSCRIPTIONAL REGULATOR [Helico... 25 8.0
ref|NP_223017.1| putative [Helicobacter pylori J99] 25 8.0
>ref|NP_222783.1| putative [Helicobacter pylori J99]
Length = 806
Score = 1333 bits (3451), Expect = 0.0
Identities = 663/808 (82%), Positives = 737/808 (91%), Gaps = 2/808 (0%)
Query: 24 MIDVNGLLKELDDALDKVVAKKEPESFLKPIISPIEDYQKSVRQIQAQFTDAPKFNEEGA 83
MI+++ L++LDDALDKVVAKKEPESFLKPIISPIEDYQKSVRQIQAQFTDAPKFNEEGA
Sbjct: 1 MIEISEWLQKLDDALDKVVAKKEPESFLKPIISPIEDYQKSVRQIQAQFTDAPKFNEEGA 60
Query: 84 YPQFLSCGLLEIKGKNGASMEFCLPKVYPFPPKSLYIEHEKDGQFLREMLMRLLSSAPLV 143
YPQFLSCGLL+++GKNGA+MEF LPKVYPFPPKSLYIEHEKDGQFLREMLMRLLSSAPLV
Sbjct: 61 YPQFLSCGLLQVRGKNGANMEFLLPKVYPFPPKSLYIEHEKDGQFLREMLMRLLSSAPLV 120
Query: 144 QLEVILVDALSLGGIFNLARRLLHKDNDFIYQQRILTESKEIEEALKHLYEYLKVNLQEK 203
QLEVIL+DALSLGGIFNLARRLL K+NDFIYQQRILTESKEIEEALKHL+EYLKVNLQEK
Sbjct: 121 QLEVILIDALSLGGIFNLARRLLDKNNDFIYQQRILTESKEIEEALKHLHEYLKVNLQEK 180
Query: 204 LAGYKDFAHYNEEKKDRLPLKALFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESE 263
LAG++DF HYNE KD LPLKALFLSGVDALS++ALYYLEKIMRFGSKNGVLSFVNLESE
Sbjct: 181 LAGFRDFVHYNENAKDSLPLKALFLSGVDALSKDALYYLEKIMRFGSKNGVLSFVNLESE 240
Query: 264 KNNKSTEDLKRYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKKKAV 323
KNN+S EDLKRYAE FKDRTSFE LKYLN+E+I+D GI+S+HM+DFADKIKAYY++KK V
Sbjct: 241 KNNQSAEDLKRYAEFFKDRTSFECLKYLNVEIISDQGIKSQHMQDFADKIKAYYKQKKEV 300
Query: 324 KRELKDLQKDEKFWTESSQFKVSVPVGWDINHKEVCFEIGNEQNHTLICGRSGSGKSNFL 383
KRELKDLQ+D++FWT+SSQ +VSVPVGWDINHKEVCF+IGNEQNHTLIC SGSGKSNFL
Sbjct: 301 KRELKDLQRDKEFWTKSSQHEVSVPVGWDINHKEVCFKIGNEQNHTLICDHSGSGKSNFL 360
Query: 384 HVLIQNLAFYYAPNEVQLFLLDYKEGVEFNAYTDPNILEHARLVSVASSVGYGMSFLNWL 443
HVLIQNLAFYY P+EVQLFLLDYKEGVEFNAY LEHARLVSVASS+ YG++FL WL
Sbjct: 361 HVLIQNLAFYYDPDEVQLFLLDYKEGVEFNAYVADPALEHARLVSVASSISYGITFLKWL 420
Query: 444 CKEMQERANLFKQFNVKDLSDYRKHGEIPRLIVVIDEFQVLFSDNKSTKAVEGHLNTLLK 503
C EMQ+RA+ FKQFNVKDLSDYRKH ++PRLIVVIDEFQVLFSDNKSTKAVEGHLNTLLK
Sbjct: 421 CDEMQKRADRFKQFNVKDLSDYRKHEKMPRLIVVIDEFQVLFSDNKSTKAVEGHLNTLLK 480
Query: 504 KGRSYGVHLILATQTMRGTDINRSIMAQIANRIALSMDAEDSNSILGDDAACELVRPEGI 563
KGRSYGVHL+LATQTMRGTDIN S AQIANRIAL MDAEDS+S+LGDDAACE+ +PEGI
Sbjct: 481 KGRSYGVHLVLATQTMRGTDINPSFKAQIANRIALPMDAEDSSSVLGDDAACEIQKPEGI 540
Query: 564 FNNNGGHQKHHTKMSIPKAPDDFKPFIKKIHRDFNQRNLVPVEHKIYNGEKPLEMPNTLK 623
FNNNGG++K+HTKMS+PKAPDDFK F+ KIH +FNQRNL P++ KIYNGE PL+MP+TLK
Sbjct: 541 FNNNGGNRKYHTKMSVPKAPDDFKSFLTKIHAEFNQRNLAPIDRKIYNGETPLKMPDTLK 600
Query: 624 ANEMRLHLGKEADYEQKDLMVGFENSESHLLVVSQDLSARIALMKLFAQNFKTANKELLF 683
ANEMRLHLGK+ DYEQKDL+V FE++ESHLLVV QDL+ARIALMKL QN K+ANKEL+F
Sbjct: 601 ANEMRLHLGKKVDYEQKDLIVEFESNESHLLVVIQDLNARIALMKLLFQNVKSANKELVF 660
Query: 684 YNAEKRLARELDELKKHHITPMQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKL 743
N EKRL R D K++ ITP++ L SVLDTAMNPNS LVIDNLNEAKELHDK+G EKL
Sbjct: 661 CNKEKRLIRSFDAQKEYGITPVENIL-SVLDTAMNPNSALVIDNLNEAKELHDKVGAEKL 719
Query: 744 RSFLEKATDNEQYCIIFAHDLKQIQANYDLSKLKELLNNHFKQRLAFRCNGENLSAIKKD 803
+SFLEKA DNEQYC+IFAHD +QI+ NY KLKELLNNHFKQ LAFRCNGENL+AIK D
Sbjct: 720 KSFLEKAIDNEQYCVIFAHDFRQIKTNYHFDKLKELLNNHFKQCLAFRCNGENLNAIKSD 779
Query: 804 LPLLTNELNALFVELSKDSHTEFRPFSL 831
LP ++LN L +ELSKDS TEFRPFSL
Sbjct: 780 LP-PPSKLNVLLIELSKDSVTEFRPFSL 806
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 82.8 bits (203), Expect = 3e-17
Identities = 84/309 (27%), Positives = 147/309 (47%), Gaps = 30/309 (9%)
Query: 327 LKDLQKDEKFWTESSQFKVSVPVGWDINHKEVCFEIGNEQNHTLICGRSGSGKSNFLHVL 386
L+++ + E F SS +++ +G DI ++ + H LI G +GSGKS ++ +
Sbjct: 492 LREILESELFQKSSSP--LTLALGKDIVGNPFITDL-KKLPHLLIAGTTGSGKSVGVNAM 548
Query: 387 IQNLAFYYAPNEVQLFLLDYKEGVEFNAYTD-PNILEHARLVSVASSVGYGMSFLNWLCK 445
I +L + P++++L ++D K VEF+ Y D P++ L + + + L + K
Sbjct: 549 ILSLLYKNPPDQLKLVMIDPKM-VEFSIYADIPHL-----LTPIITDPKKAIGALQSVAK 602
Query: 446 EMQERANLFKQFNVKDLSDYRKHGE------IPRLIVVIDEFQVLFSDNKSTKAVEGHLN 499
EM+ R +L ++ VK + Y + + P LIVVIDE L K E +
Sbjct: 603 EMERRYSLMSEYKVKTIDSYNEQAQSNGVEAFPYLIVVIDELADLMM--TGGKEAEFPIA 660
Query: 500 TLLKKGRSYGVHLILATQTMRGTDINRSIMAQIANRIALSMDAE-DSNSILGDDAACELV 558
+ + GR+ G+HLI+ATQ + I + +R++ + + DS IL D A L+
Sbjct: 661 RIAQMGRASGLHLIVATQRPSVDVVTGLIKTNLPSRVSFRVGTKIDSKVILDTDGAQSLL 720
Query: 559 -RPEGIFNNNGG------HQKHHTKMSIPKAPDDFKPFIKKIHRDFN---QRNLVPVEHK 608
R + +F G H T+ I K D K K++ D + + + +P++
Sbjct: 721 GRGDMLFTPPGTNGLVRLHAPFATEDEIKKIVDFIKA-QKEVEYDKDFLLEESRMPLDTP 779
Query: 609 IYNGEKPLE 617
Y G+ LE
Sbjct: 780 NYQGDDILE 788
>ref|NP_223635.1| DNA transfer protein [Helicobacter pylori J99]
Length = 475
Score = 37.0 bits (84), Expect = 0.002
Identities = 24/61 (39%), Positives = 30/61 (48%), Gaps = 7/61 (11%)
Query: 364 NEQNHTLICGRSGSGKSNFLHVLIQNLAFYYAPNEVQL-------FLLDYKEGVEFNAYT 416
N HT+I G +GSGKS F+ LI NL Y + V L + D+ EG A T
Sbjct: 259 NVVGHTMIIGSTGSGKSTFISFLIANLLTKYDMSVVALDRMNGLEIMTDFFEGQYNTANT 318
Query: 417 D 417
D
Sbjct: 319 D 319
>ref|NP_223062.1| multi-drug resistance protein [Helicobacter pylori J99]
Length = 551
Score = 33.5 bits (75), Expect = 0.022
Identities = 31/118 (26%), Positives = 54/118 (45%), Gaps = 27/118 (22%)
Query: 373 GRSGSGKSNFLHVLIQNLAFYYAPNEVQLFLLDYKEGVEFNAYTDPNILEHARLV----- 427
G SGSGKS+ ++++++ Y P++ ++F+ D K + T ++ E +V
Sbjct: 370 GESGSGKSSLVNLILR----LYEPSKGEIFINDQK----IESITQKSLREKISVVTQRVF 421
Query: 428 ----SVASSVGYGMSFLNWLCKEMQERANLFKQFNVKDLSDYRKHGEIPRLIVVIDEF 481
SVA +V YG+ KE ++A D + HG + V+DEF
Sbjct: 422 IFNGSVAENVAYGLEIDEIKIKECLKKAQAL------DFVEKMPHG----IESVLDEF 469
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 32.7 bits (73), Expect = 0.038
Identities = 52/253 (20%), Positives = 93/253 (36%), Gaps = 26/253 (10%)
Query: 96 KGKNGASMEFCLPKVYPFPPKSLYIEHEKDGQFLREMLMRLLSSAPLVQLEVILVDALSL 155
K KN A + C + P + L E +K + ++ ++R + + E +L
Sbjct: 730 KAKNEAERKECEKLLTP-EARKLLEEAKKSVKAYKDCVLRARNEKEKQECEKLLTPE--- 785
Query: 156 GGIFNLARRLLHKDN-------DFIYQQRILTESKEIEEALKHLYEYLKVNLQEKLAGYK 208
AR+LL + D + + + E KE E+ L L +E + YK
Sbjct: 786 ------ARKLLEESKKSVKAYLDCVSKAKNEAERKECEKLLTPEARKLLEEAKESVKAYK 839
Query: 209 DFAHYNEEKKDRLPLKALFLSGVDAL----SQNALYYLEKIMRFGSKNGVLSFVNLESEK 264
D +K++ + L L ++ YL+ + + ++ L + +
Sbjct: 840 DCVSRARNEKEKQECEKLLTPEARKLLEESKKSVKAYLDCVSKAKNEAERKECEKLLTPE 899
Query: 265 NNKSTEDLKRYAECFKD-----RTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEK 319
K E+ K + +KD R E+ + + + D K EK
Sbjct: 900 ARKLLEEAKESVKAYKDCVSRARNEKEKQECEKLLTPEAKKLLENQALDCLKNAKTEAEK 959
Query: 320 KKAVKRELKDLQK 332
K+ VK KDLQK
Sbjct: 960 KRCVKDLPKDLQK 972
Score = 28.5 bits (62), Expect = 0.72
Identities = 44/178 (24%), Positives = 71/178 (39%), Gaps = 33/178 (18%)
Query: 160 NLARRLLHKDN-----DFIYQQRILTESKEIEEALKHLYEYLKVNLQEKLAGYKDFAHYN 214
+L +++L K++ D + + + E KE E+ L L +E + YKD
Sbjct: 969 DLQKKVLAKESVRVYLDCVSKAKNEAERKECEKLLTPEARKLLEEAKESVKAYKDCVSRA 1028
Query: 215 EEKKDRLPLKALFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESEKNNKSTEDLKR 274
+K++ + L L+ A LE+ + K V ++++ S N+ K
Sbjct: 1029 RNEKEKQECEKL-------LTPEARKLLEQEV----KKSVKAYLDCVSRARNE-----KE 1072
Query: 275 YAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKKKAVKRELKDLQK 332
EC K T E K L + + D K EKK+ VK KDLQK
Sbjct: 1073 KQECEKLLTP-EARKLLENQAL-----------DCLKNAKTEAEKKRCVKDLPKDLQK 1118
>ref|NP_222737.1| DNA transfer protein [Helicobacter pylori J99]
Length = 787
Score = 30.8 bits (68), Expect = 0.15
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 361 EIGNEQNHTLICGRSGSGKSNFLHVLIQNLAFYYAPNEVQLFLLDYKEGV 410
EI HTL+ G +GSGKS + L+ + Y ++L D +G+
Sbjct: 434 EIARVNGHTLVIGATGSGKSTLISYLMMSALKY---QNMRLLAFDRMQGL 480
Score = 26.6 bits (57), Expect = 2.7
Identities = 28/114 (24%), Positives = 51/114 (44%), Gaps = 13/114 (11%)
Query: 705 MQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKLRSF---LEKATDNEQYCIIFA 761
+ PL + L+ A N N+ L + NL+ + +G+ F LE++ N+ ++F
Sbjct: 580 LNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFL 639
Query: 762 HDLKQIQANYDLSKLKELLNNHFKQRL--AFRCNGENLSAIKKDLPLLTNELNA 813
+ K N +LLN + A + NG + A+ +D+ L+ NA
Sbjct: 640 DEFKSYVEN-------DLLNTKINALITQARKANGVVVLAL-QDIYQLSGVKNA 685
>ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N) [Helicobacter pylori
J99]
Length = 522
Score = 30.0 bits (66), Expect = 0.25
Identities = 14/43 (32%), Positives = 26/43 (59%), Gaps = 1/43 (2%)
Query: 257 FVNLES-EKNNKSTEDLKRYAECFKDRTSFERLKYLNIEVIND 298
F LE E+ +S ED KR+ + ++R +FE++K +++ D
Sbjct: 164 FTRLEKLERERRSLEDKKRFQKDLEERLNFEKMKLERLDLKED 206
>ref|NP_223711.1| PRIMOSOMAL PROTEIN N' (REPLICATION FACTOR Y) [Helicobacter pylori
J99]
Length = 619
Score = 29.6 bits (65), Expect = 0.32
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 180 TESKEIEEALKHLYEYLKVNLQEKLAGYK--------DFAHYNEEKKDRLPLKA 225
TE+ +E L+ ++L+ LQE+ Y +F H NEEK +L L+A
Sbjct: 498 TETDLLENFLEDYEDFLQYELQERCELYPPFSRLCLLEFKHKNEEKAQQLSLEA 551
>ref|NP_223796.1| putative SIGNAL RECOGNITION PARTICLE PROTEIN [Helicobacter pylori
J99]
Length = 448
Score = 29.3 bits (64), Expect = 0.42
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 666 LMKLFAQNFKTANKELLFYNAEKRLARELDELKK 699
+ + + FK A ++ F + EK L R LDELKK
Sbjct: 1 MFQALSDGFKNALNKIRFQDDEKALDRALDELKK 34
>ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 875
Score = 29.3 bits (64), Expect = 0.42
Identities = 32/147 (21%), Positives = 68/147 (45%), Gaps = 22/147 (14%)
Query: 207 YKDFAHYNEEKK-DRLPLKALFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESEKN 265
YKD + +E++ D L + +FL+G DA N L +++K +++ +G++ + +
Sbjct: 502 YKDLSQKMKEREIDLLLVANMFLTGFDATRLNTL-WVDKNLKY---HGLIQAFS----RT 553
Query: 266 NKSTEDLKRYAE--CFKDRTS--------FERLKYLNIEVINDHGIQSKHMKDFADKIKA 315
N+ + +K + CF+D F +I ++ + ++K +AD K
Sbjct: 554 NRILDSVKTHGNIVCFRDLEQDLNDALMLFGNKDARSIALLRKY---EDYLKGYADNNKE 610
Query: 316 YYEKKKAVKRELKDLQKDEKFWTESSQ 342
Y + ++R L + E +ES +
Sbjct: 611 YEGYEGLIERLLTEFPLKEPIISESQK 637
>ref|NP_223121.1| putative [Helicobacter pylori J99]
Length = 288
Score = 29.3 bits (64), Expect = 0.42
Identities = 16/61 (26%), Positives = 30/61 (48%), Gaps = 1/61 (1%)
Query: 301 IQSKHMKDF-ADKIKAYYEKKKAVKRELKDLQKDEKFWTESSQFKVSVPVGWDINHKEVC 359
IQ +H ++ AD I ++Y+KK + + KD + S F + ++++ KE
Sbjct: 123 IQGEHCFEYEADDIISFYKKKDPNNYVIASMDKDILYSNRGSHFNLKTNAFFNVSQKEAH 182
Query: 360 F 360
F
Sbjct: 183 F 183
>ref|NP_223117.1| putative [Helicobacter pylori J99]
Length = 391
Score = 29.3 bits (64), Expect = 0.42
Identities = 15/59 (25%), Positives = 26/59 (43%)
Query: 387 IQNLAFYYAPNEVQLFLLDYKEGVEFNAYTDPNILEHARLVSVASSVGYGMSFLNWLCK 445
+Q FY P + + DY ++N Y + LE + + +G+ + L WL K
Sbjct: 330 VQKGLFYLIPKHLLPNVKDYLYPHDYNGYVKQDYLEKPLNLVSSQGIGFEKTLLEWLDK 388
>ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 28.9 bits (63), Expect = 0.55
Identities = 28/129 (21%), Positives = 65/129 (49%), Gaps = 24/129 (18%)
Query: 631 LGKEADYEQKDLM--------VGFENSESHLLVVSQDLSARIALMKLFAQNFKTANKELL 682
L + DY+++D++ V +EN + + S D + R+ + K +++
Sbjct: 211 LFRAMDYQKQDIIKMFYPLVKVRYENDKYLIPFASLDANQRMEF------DLKDPQGKII 264
Query: 683 FYNAEKRLARELDELKKHHITPMQGPLGSVLDTAM-NPNSV---LVIDNL-----NEAKE 733
+K +R++ ELK++H+ ++ P+ +L+ + P V +++D L N ++
Sbjct: 265 LLAGKKLTSRKIKELKENHLEWVEYPMDILLNRHLAEPVMVGKEVLLDMLTQLDKNRLEK 324
Query: 734 LHDKIGVEK 742
+HD +GV++
Sbjct: 325 IHD-LGVQE 332
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 28.9 bits (63), Expect = 0.55
Identities = 49/237 (20%), Positives = 97/237 (40%), Gaps = 21/237 (8%)
Query: 584 DDFKPFIKKIHRDFN--QRNLVPVEHKIY-NGEKPLEMPNTLKANEMRLHLGKEADYEQK 640
++FK I++ ++ + ++ + +E +I N EK ++ N +K E + K E
Sbjct: 431 NEFKSDIQEYNKKYCGLEKGINNLEKEISENQEKVKKLENEIKELEKNMVSIKPIVNEIN 490
Query: 641 DLMVGFENSESHLLVVSQDLSARIA------LMKLFAQNFKTANKELLFYNAEKRLAREL 694
L+ G+ + L + RI + + ++ T L +Y+ K +E
Sbjct: 491 TLLKGYGFTNFSLACTEDEKFYRIQREDGQLVGETLSEGEVTFITFLYYYHLAKGSLKEN 550
Query: 695 DELKKHHITPMQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKLRSFLEKATDNE 754
D + K+ + + P+ S+ + SVLV D + E E +K ++++ +
Sbjct: 551 D-ISKNKVLVIDDPISSLDSNILFMVSVLVKDLMKETME--EKTNIKQIIILTHNTYFYK 607
Query: 755 QYCIIFAHDLKQIQANYDLSKLKELLNNHFKQRLAFRCNGENLSAIKKDLPLLTNEL 811
+ I +DLK+ Q Y +K K + G + IK LL E+
Sbjct: 608 E--ITLEYDLKRYQGKYSFWIIK-------KDNNVSKIKGYKENPIKNSYELLWQEV 655
>ref|NP_223671.1| putative [Helicobacter pylori J99]
Length = 146
Score = 28.9 bits (63), Expect = 0.55
Identities = 18/80 (22%), Positives = 33/80 (40%)
Query: 502 LKKGRSYGVHLILATQTMRGTDINRSIMAQIANRIALSMDAEDSNSILGDDAACELVRPE 561
L + Y + ++ T RG ++ +S+ A + + D E + + G A E
Sbjct: 61 LMRKADYVIGIVNEDSTTRGAEVQQSVFALKIDHDTIGTDEEGALKVEGVCAQKGSQEYE 120
Query: 562 GIFNNNGGHQKHHTKMSIPK 581
+ N N H T++ PK
Sbjct: 121 ELVNKNTWHFTRSTRLGKPK 140
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 28.9 bits (63), Expect = 0.55
Identities = 42/184 (22%), Positives = 77/184 (41%), Gaps = 49/184 (26%)
Query: 175 QQRILTESKEIEEALKHLYEYLK---------VNLQEKLAGYKDFAHYNEEKKDRLPLKA 225
+ +++ + +EA K + ++L +N + +A K+ +Y+E K+ + L
Sbjct: 561 EDKLIAKGLSPQEANKLVKDFLSSNKELVGKALNFNKAVAEAKNTGNYDEVKQAQKDL-- 618
Query: 226 LFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESEKNNKSTEDLKRYAECFKDRTSF 285
+ +L E++ + +KN LES+ NK+ + K A KD
Sbjct: 619 ----------EKSLKKRERLEKDVAKN-------LESKSGNKNKMEAKSQANSQKD---- 657
Query: 286 ERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKKKAVKRELKD----LQKDEKFWTES- 340
E +N E D + AY + K +KREL D + KD K +++S
Sbjct: 658 EIFALINKEANRD------------ARAIAYAQNLKGIKRELSDKLENINKDLKDFSKSF 705
Query: 341 SQFK 344
+FK
Sbjct: 706 DEFK 709
Score = 26.6 bits (57), Expect = 2.7
Identities = 34/155 (21%), Positives = 59/155 (37%), Gaps = 12/155 (7%)
Query: 589 FIKKIHRDFNQRNLVPVEHKIYNGEKPLEMPNTLKANEMRLHLGKEADYEQKDLMVGFEN 648
F K + N N V+ + EK L+ L+ + + K + + + +
Sbjct: 595 FNKAVAEAKNTGNYDEVKQAQKDLEKSLKKRERLEKDVAKNLESKSGNKNKMEAKSQANS 654
Query: 649 SESHLLVVSQDLSARIALMKLFAQNFKTANKELL--FYNAEKRL---ARELDELKKHHIT 703
+ + + + R A +AQN K +EL N K L ++ DE K
Sbjct: 655 QKDEIFALINKEANRDARAIAYAQNLKGIKRELSDKLENINKDLKDFSKSFDEFKNGKNK 714
Query: 704 P-------MQGPLGSVLDTAMNPNSVLVIDNLNEA 731
++ GSV D +NP + ++NLN A
Sbjct: 715 DFSKAEETLKALKGSVKDLGINPEWISKVENLNAA 749
>ref|NP_224096.1| putative [Helicobacter pylori J99]
Length = 190
Score = 27.7 bits (60), Expect = 1.2
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 443 LCKEMQERANLFKQF-NVKDLSDYRKHGEIPRLIVVIDEFQV-LFSDNKSTKAVE 495
LC E +R N FK F ++ LS Y + E+ L I +F + L N S ++VE
Sbjct: 116 LCVENAQRENAFKDFVELETLSAYYSYKELDALQREIKKFSLQLSKKNFSNQSVE 170
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 26.9 bits (58), Expect = 2.1
Identities = 55/245 (22%), Positives = 99/245 (39%), Gaps = 58/245 (23%)
Query: 631 LGKEADYEQKDLMVGFENSESHLLVVSQDLSARIALMKLFAQNFKTANKELLFYNAEKRL 690
LG E D+E++ S + + A+ ++F + KEL+ NA++ L
Sbjct: 1012 LGLEKDFEKEI------TPRSAKMQNIEPRQAQAKKAQIFFERTLNPKKELIITNAKEAL 1065
Query: 691 ARELDE--------LKKHHITP-MQGPLGSVLDTAM-------NPNSVLVIDNLN----- 729
+++ ++ H T ++ + +L+ + N +L D L+
Sbjct: 1066 IASINQKGGLDLHFIRDHFTTQSLETTIKELLEQKLIYKDHKDNGGYILANDYLSGNVKR 1125
Query: 730 EAKELHDKI--GVEKLRSFLEKATDNEQYCIIFAHDLK--QIQAN---------YDLSKL 776
+ KE+ + I GVE L + ++ +I DLK +I AN Y L
Sbjct: 1126 KLKEVKEAINQGVEGLEANVKDLE------LIIPKDLKATEIMANINSPWIPTQYLEEFL 1179
Query: 777 KELLNNHFKQRLAFRCNGENLSAIKKDLPL-----------LTNELNALFVELSKDS-HT 824
EL NH++++ + LS +K+D+ + NELN L+ KD H+
Sbjct: 1180 MELSANHYEKQYGDKMTDYQLSNLKEDIKIEHLSGAYEVFVRNNELNELYGIRHKDKPHS 1239
Query: 825 EFRPF 829
PF
Sbjct: 1240 YKVPF 1244
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 3194
Score = 26.9 bits (58), Expect = 2.1
Identities = 18/63 (28%), Positives = 27/63 (42%)
Query: 485 FSDNKSTKAVEGHLNTLLKKGRSYGVHLILATQTMRGTDINRSIMAQIANRIALSMDAED 544
FS N+S K ++ + S + L T + IN+ I + ALS +ED
Sbjct: 14 FSKNRSFKGIKKKIAKKYTIKNSLSIIYSLKTHSNSSLSINKKIFLGLGFVSALSAQSED 73
Query: 545 SNS 547
NS
Sbjct: 74 YNS 76
>ref|NP_224162.1| ELONGATION FACTOR TS (EF-TS) [Helicobacter pylori J99]
Length = 355
Score = 26.6 bits (57), Expect = 2.7
Identities = 23/72 (31%), Positives = 31/72 (42%), Gaps = 15/72 (20%)
Query: 270 EDLKRYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYE----KKKAVKR 325
E L AE KD +RL G K++ F +I+ E +KKA +
Sbjct: 213 ETLALIAEIEKDNEEAKRL-----------GKPLKNIPTFGSRIELSDEVLAHQKKAFED 261
Query: 326 ELKDLQKDEKFW 337
ELK+ K EK W
Sbjct: 262 ELKEQGKPEKIW 273
>ref|NP_223651.1| putative [Helicobacter pylori J99]
Length = 339
Score = 26.6 bits (57), Expect = 2.7
Identities = 41/170 (24%), Positives = 70/170 (41%), Gaps = 35/170 (20%)
Query: 161 LARRLLHKDNDFIYQQRILTESKEIEEALKHLYEYLKVNLQEKLAGYKDFAHYNEEKKDR 220
L RL+ K + Y+ I ++ K I+E EY D NEEK+DR
Sbjct: 181 LISRLMCKFSPIDYESTIPSDFKPIDEE-----EY-----------EDDLEWLNEEKEDR 224
Query: 221 LPLKALFLSGV------DALSQNALYYLEKIMRFGSKNGVLSFVNLESEKNNKSTEDL-- 272
L LFL+G+ + +++ Y E ++ N+ +K + + L
Sbjct: 225 LFNYYLFLNGIKESDVEEVFNESVEIYDECLIEIAQ--------NVLKDKFSYDIDLLQV 276
Query: 273 --KRYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKK 320
K YA+ ++ S++ +K + D + KD+ DK K + KK
Sbjct: 277 LVKGYAKEIREFLSYKPIKEIKDFKDKDTALYISLGKDY-DKEKEPFSKK 325
Score = 25.0 bits (53), Expect = 8.0
Identities = 21/85 (24%), Positives = 40/85 (46%), Gaps = 5/85 (5%)
Query: 746 FLEKATDNEQYCIIFAHDLKQIQANYDLSKLKELLNNHFKQRLAFRCNGENLSAIKKDLP 805
F E ++ I A ++ + + +YD+ L+ L+ + K+ F + IK ++
Sbjct: 244 FNESVEIYDECLIEIAQNVLKDKFSYDIDLLQVLVKGYAKEIREFL----SYKPIK-EIK 298
Query: 806 LLTNELNALFVELSKDSHTEFRPFS 830
++ AL++ L KD E PFS
Sbjct: 299 DFKDKDTALYISLGKDYDKEKEPFS 323
>ref|NP_223610.1| putative [Helicobacter pylori J99]
Length = 267
Score = 26.6 bits (57), Expect = 2.7
Identities = 19/82 (23%), Positives = 43/82 (52%), Gaps = 7/82 (8%)
Query: 258 VNLESEKNNKSTEDLKRYAECFKDRTSF----ERLKYLNIE--VINDHGIQS-KHMKDFA 310
+ L+ KN ++ +D + + S L+ LNIE + + Q+ + +++
Sbjct: 56 LKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQ 115
Query: 311 DKIKAYYEKKKAVKRELKDLQK 332
++IK EK++ +K+E+ +L+K
Sbjct: 116 NEIKHKSEKQEVLKKEMLELEK 137
>ref|NP_223046.1| putative FLAGELLAR EXPORT APPARATUS [Helicobacter pylori J99]
Length = 258
Score = 26.6 bits (57), Expect = 2.7
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 690 LARELDELKKHHITPMQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKLRSFLEK 749
L ++ DEL H + L + A + VL+ + N+ ++ K G EK+R+ L
Sbjct: 64 LLKKTDELSSHLVK-----LQMQFEKAQEESKVLIENAKNDGYKIGFKEGEEKMRNELTH 118
Query: 750 ATDNEQYCIIFA 761
+ + E+ ++ A
Sbjct: 119 SVNEEKNQLLHA 130
>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 815
Score = 26.2 bits (56), Expect = 3.6
Identities = 32/114 (28%), Positives = 47/114 (41%), Gaps = 19/114 (16%)
Query: 32 KELDDALDKVVAKKEPESFLKPIISPIEDYQKSVRQIQAQFTDAPKFNEEGAYPQFLSCG 91
KE+ D L+K++AK + LK +I ++ F D K E A LS
Sbjct: 71 KEIGDKLNKIIAKIAERNDLKGVIDSVD------------FNDNTKLGEGKAMIDTLS-N 117
Query: 92 LLEI-----KGKNGASMEFCLPKVYPFPPKSLYIEHEKD-GQFLREMLMRLLSS 139
L++I G +GA + L Y + + E K GQF + LL S
Sbjct: 118 LVKIFADLSLGAHGALDDDLLGDAYEYLMRHFASESGKSKGQFYTPSEVSLLLS 171
>ref|NP_223362.1| EXCINUCLEASE ABC SUBUNIT A. [Helicobacter pylori J99]
Length = 941
Score = 26.2 bits (56), Expect = 3.6
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 767 IQANYDLSKLKELLNNHFKQRLAFRCNGENLSA 799
IQ YD+ K ++ L+++ ++ CNG L A
Sbjct: 379 IQIAYDMFKEQKDLSDYMSEKTCSSCNGHRLKA 411
Score = 26.2 bits (56), Expect = 3.6
Identities = 18/73 (24%), Positives = 31/73 (41%), Gaps = 3/73 (4%)
Query: 249 GSKNGVLSFVNLESEKNNKSTEDLKRYAECFKDRT---SFERLKYLNIEVINDHGIQSKH 305
GS L+F L +E + E L YA F D+ + ++++ L + D SK+
Sbjct: 40 GSGKSTLAFDTLYAEGQRRYLESLSSYARQFLDKVGKPNVDKIEGLTPAIAIDQKTTSKN 99
Query: 306 MKDFADKIKAYYE 318
+ I Y+
Sbjct: 100 PRSTVGTITEIYD 112
>ref|NP_223192.1| cag island protein, DNA transfer protein [Helicobacter pylori J99]
Length = 330
Score = 26.2 bits (56), Expect = 3.6
Identities = 10/45 (22%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 368 HTLICGRSGSGKSNFLHVLIQNLAFYYAPNEVQLFLLDYKEGVEF 412
+ ++CG +GSGK+ ++ +++ + P E ++ ++ E + F
Sbjct: 173 NVIVCGGTGSGKTTYIKSIME-----FIPKEERIISIEDTEEIVF 212
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 26.2 bits (56), Expect = 3.6
Identities = 38/154 (24%), Positives = 62/154 (39%), Gaps = 30/154 (19%)
Query: 636 DYEQKDLMVGFENSESHLLVVSQ-DLSARIALMKLFAQNFKTANKELLFYNAEKRLARE- 693
D E+ D + FE+ S + ++Q DL +M+ +T K+ FYN R E
Sbjct: 186 DKEKDDPQLIFESMNSKGIELTQTDLIRNYIIMET-----ETEEKQKDFYNGYWRAMEED 240
Query: 694 -------LDELKKHHITPMQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKLRSF 746
+ +H++T G + PN V K+ K G+E +
Sbjct: 241 FKQNETLFNRFVRHYLTIKTGKI---------PNIKKVYGAF---KDYQQKEGIE-IEDL 287
Query: 747 LEKATDNEQYCIIFAHDLKQIQANYDLSKLKELL 780
L+ D ++YC F + +AN DL+K L
Sbjct: 288 LK---DLQKYCGYFCQIAFKKEANKDLNKALSFL 318
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 26.2 bits (56), Expect = 3.6
Identities = 29/125 (23%), Positives = 55/125 (43%), Gaps = 10/125 (8%)
Query: 204 LAGYKDFAHYNEEKKDRLPLKALFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESE 263
L+ +K + Y E K + +P L +SG+ S + +EK+ + VL+ + +
Sbjct: 761 LSAFKLYLRYKEYKDNPIPFTFLPISGLKNDSNDMKETIEKLCELDNHPIVLTDDDRKCV 820
Query: 264 KNNKSTEDLKRYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKKKAV 323
N ++T +E FK R + E + I ++D +H K D A K A
Sbjct: 821 FNQQAT------SERFK-RANEEMHDPITILQLSD---CDRHFKQIEDCFSANDRNKYAK 870
Query: 324 KRELK 328
++++
Sbjct: 871 NKQME 875
>ref|NP_224063.1| putative thiophene/furan oxidation protein [Helicobacter pylori
J99]
Length = 461
Score = 25.8 bits (55), Expect = 4.7
Identities = 27/126 (21%), Positives = 54/126 (42%), Gaps = 10/126 (7%)
Query: 124 KDGQFLREMLMRLLSSAPLVQLEVILVDALSLGGIFNLARRLLHKDNDFIYQQRI----L 179
K G+F ++ + ++ V L+ + LAR+L + FI + R L
Sbjct: 115 KAGEFSKKAFLNHKMDLSEIEASVQLILCEDESVLNALARQLKGELKIFIEEARNNLLKL 174
Query: 180 TESKEI------EEALKHLYEYLKVNLQEKLAGYKDFAHYNEEKKDRLPLKALFLSGVDA 233
S E+ E+ + + NL++++A +KD ++ +K R AL + G
Sbjct: 175 LASSEVLIDYSEEDIPSDFLKEVSFNLEKQIASFKDLLDFSNAQKQRNKGHALSIVGKPN 234
Query: 234 LSQNAL 239
+++L
Sbjct: 235 AGKSSL 240
>ref|NP_223859.1| putative ABC transporter, ATP-binding protein [Helicobacter pylori
J99]
Length = 228
Score = 25.8 bits (55), Expect = 4.7
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 684 YNAEKRLARELDELKKHHITPMQGPLGSVLDTAMNPNSVLVIDNLNEAKELHDKIGVEKL 743
Y + K L +L K + GP G+ T + + L ++ E K L+ KIG+E
Sbjct: 12 YGSLKALDNISLKLPKQQFIGLLGPNGAGKTTLLKILAGLNLNYQGEVKILNQKIGIETK 71
Query: 744 RS 745
+S
Sbjct: 72 KS 73
>ref|NP_223483.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
pylori J99]
Length = 273
Score = 25.8 bits (55), Expect = 4.7
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 405 DYKEGVEFNAYTDPNILE--HARLVSVASSVGYGMSFLNWLCKEMQERANLFKQFN 458
D+KEG++F + +I E +ARL+ + LN +E+QER + K ++
Sbjct: 133 DFKEGLDF---LEKHIQELGYARLMHLLYDASVKSEPLNHKNQEIQERVGIIKAYS 185
>ref|NP_223066.1| putative [Helicobacter pylori J99]
Length = 167
Score = 25.8 bits (55), Expect = 4.7
Identities = 21/92 (22%), Positives = 42/92 (44%), Gaps = 10/92 (10%)
Query: 252 NGVLSFVNLESEKNNKSTEDLKRYAECFKDRTSFERLK-------YLNIEVINDHGIQSK 304
+G L + LE K+++ + + Y EC K + ++ +K Y +E + +
Sbjct: 52 DGDLETLLLEIAKHDEFLKCFEGYLECIKSKEHYKPIKNIRKNMLYAYLEALGLENLTKT 111
Query: 305 HMK--DFADKIKAYYEKK-KAVKRELKDLQKD 333
++ D KIK+ YE+ K + E+ D +
Sbjct: 112 NIDVFDSKGKIKSRYEENYKKLTEEVIDFSSN 143
>ref|NP_223656.1| putative [Helicobacter pylori J99]
Length = 337
Score = 25.4 bits (54), Expect = 6.1
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 241 YLEKIMRFGSKNGVLSFVNLESEKNNKSTEDLKRYAECFKDRTSFERLKYLNIEVINDHG 300
Y EKI + +NL ++++ + E+L + + K++ R K++ E+
Sbjct: 79 YREKIFECVEEEKHKQALNLINKEDTEDKEELAKKIKEIKEKAKVLRQKFMAFEM----- 133
Query: 301 IQSKHMKDFADK 312
+H K+F +K
Sbjct: 134 --KEHSKEFPNK 143
>ref|NP_223591.1| putative [Helicobacter pylori J99]
Length = 291
Score = 25.4 bits (54), Expect = 6.1
Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 9/87 (10%)
Query: 572 KHHTKMSIPKAPDDF-----KPFIKKIHRDFNQRNLVPVEHKIYNGEKPLEMPNTLKANE 626
KH M P+ +F KP K H F +++ E ++N + LK NE
Sbjct: 154 KHQPNMDNPEDNYEFEFHAQKPENDKKHWWFKVGDILESESHVWNYADE----HGLKGNE 209
Query: 627 MRLHLGKEADYEQKDLMVGFENSESHL 653
++L + K L+ FE +E +L
Sbjct: 210 LKLLGDLHRAFHTKQLVSFFEETEKNL 236
>ref|NP_223447.1| POLYPEPTIDE DEFORMYLASE [Helicobacter pylori J99]
Length = 174
Score = 25.4 bits (54), Expect = 6.1
Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 7/71 (9%)
Query: 270 EDLKRYAEC-FKDRTSFERLKYLN----IEVINDHGIQSKHMKDFADKIKAYYEKKKAVK 324
E+++R+ + + + F +K L + V H I + F DK+ K+K +
Sbjct: 104 EEVERFEKVKIEYQNRFAEVKILEASELLAVAIQHEIDHLNGVLFVDKLSIL--KRKKFE 161
Query: 325 RELKDLQKDEK 335
+ELK+LQK +K
Sbjct: 162 KELKELQKKQK 172
>ref|NP_223264.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 433
Score = 25.4 bits (54), Expect = 6.1
Identities = 11/32 (34%), Positives = 22/32 (68%), Gaps = 2/32 (6%)
Query: 303 SKHMKDFADKIKAYYEKKKAVKRELKDLQKDE 334
+KH+K+ DK+ +YEK+ + + ++ +QK E
Sbjct: 404 AKHVKENIDKM--FYEKQDELNKIIEKIQKGE 433
>ref|NP_223262.1| PENICILLIN-BINDING PROTEIN [Helicobacter pylori J99]
Length = 660
Score = 25.4 bits (54), Expect = 6.1
Identities = 23/114 (20%), Positives = 49/114 (42%), Gaps = 4/114 (3%)
Query: 185 IEEALKHLYEYLKVNLQEKLAGYKDFAHYNEEKKDRLPLKALFLSGVDALSQNALYYLEK 244
++EAL H +NL ++L K + ++ LP + G A+S + EK
Sbjct: 427 LQEALSHSLNLATINLSDQLGFEKIYQSLSDMGFKNLPKDLSIVLGSFAIS--PIDAAEK 484
Query: 245 IMRFGSKNGVLSFVNLESEKNNKSTEDLKRYAECFKDRTSFERLKYLNIEVIND 298
F + +L + +ES N ++ ++K + + + + +L + + D
Sbjct: 485 YSLFSNYGTMLKPMLIESITNQQN--EVKTFTPIETKKITSKEQAFLTLSALMD 536
>ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 homolog) [Helicobacter
pylori J99]
Length = 983
Score = 25.4 bits (54), Expect = 6.1
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 368 HTLICGRSGSGKSNFLHVLI 387
HTLI G +GSGK+ F+ + +
Sbjct: 592 HTLILGSTGSGKTVFMSMTL 611
>ref|NP_223039.1| putative [Helicobacter pylori J99]
Length = 186
Score = 25.4 bits (54), Expect = 6.1
Identities = 20/77 (25%), Positives = 37/77 (47%), Gaps = 6/77 (7%)
Query: 263 EKNNKSTEDLKRYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKD-----FADKIKAYY 317
++ + E+LK + KD +FE+L + E+I+ +S H +D DK+
Sbjct: 109 QRKRQIRENLKNRSNR-KDAKNFEKLSNIAEEIISKKQEESHHKEDSNDENHKDKLSNIT 167
Query: 318 EKKKAVKRELKDLQKDE 334
E+ K+E +KD+
Sbjct: 168 EEMILKKQEELKARKDK 184
>ref|NP_223832.1| HISTIDYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 442
Score = 25.0 bits (53), Expect = 8.0
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 452 NLFKQFNVKDLSDYRKHGEIPRLIVVIDEFQVLFSDNKSTKA 493
+L K F+ ++L I RLIV + E Q+L D +ST+A
Sbjct: 307 HLTKNFSKENLQGVGASIGIDRLIVALSEMQLL--DERSTQA 346
>ref|NP_223515.1| putative [Helicobacter pylori J99]
Length = 541
Score = 25.0 bits (53), Expect = 8.0
Identities = 31/136 (22%), Positives = 54/136 (38%), Gaps = 5/136 (3%)
Query: 210 FAHYNEEKKDRLPLKALFLSGVDALSQNALYYLEKIMRFGSKNGVLSFVNLESEKNNKST 269
+ YN+ K P A F + NA YL++ + L ++ +
Sbjct: 384 YLDYNDFKPKLYPHAAEFKTSQKGEKGNAPIYLQERHKAKENKQPLEENKVKPRNSGFEE 443
Query: 270 EDLK-RYAECFKDRTSFERLKYLNIEVINDHGIQSKHMKDFADKIKAYYEKKKAVKRELK 328
E++K R E KD+ + + E N+ + K+ A K +A K KR LK
Sbjct: 444 EEVKTRRPEPTKDQNNAIQQG----ETKNNESKNTPISKENAAKKEAPKPSSKEEKRRLK 499
Query: 329 DLQKDEKFWTESSQFK 344
+ +K K + +F+
Sbjct: 500 EEKKKAKAEQRAREFE 515
>ref|NP_223118.1| putative TRANSCRIPTIONAL REGULATOR [Helicobacter pylori J99]
Length = 123
Score = 25.0 bits (53), Expect = 8.0
Identities = 16/46 (34%), Positives = 26/46 (55%), Gaps = 2/46 (4%)
Query: 17 ILNLRIKMIDVNGLLKELDDALDKVVAKKEPESFLKPIISPIEDYQ 62
IL L+ K+ +++ L KEL DAL K K ++ K + +P Y+
Sbjct: 74 ILRLKEKLDELDNLNKELQDALHK--HSKNTKTPTKNLNTPTNFYE 117
>ref|NP_223017.1| putative [Helicobacter pylori J99]
Length = 321
Score = 25.0 bits (53), Expect = 8.0
Identities = 29/112 (25%), Positives = 46/112 (40%), Gaps = 23/112 (20%)
Query: 369 TLICGRSGSGKSNFLHVLIQNL---AFYYAPNEVQLFLLDYKEGVEFNAYTDPNILEHAR 425
TLI G GSGK++FL + + NE+ LD R
Sbjct: 7 TLITGFLGSGKTSFLSEYLNQIDHQGVALIINEIGQAALD------------------QR 48
Query: 426 LVSVASSVGYGMSFLNWLCKEMQERANLFKQFNVKDLSDYRKHGEIPRLIVV 477
++SV G M +LN C +R +L + L++Y GEI + +++
Sbjct: 49 ILSV-QYCGEKMLYLNAGCVCCNKRLDLVESLKA-TLNNYEWRGEILKRVII 98
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 0.136 0.385
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 935,707
Number of Sequences: 1491
Number of extensions: 47572
Number of successful extensions: 244
Number of sequences better than 10.0: 43
Number of HSP's better than 10.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 207
Number of HSP's gapped (non-prelim): 65
length of query: 831
length of database: 494,079
effective HSP length: 86
effective length of query: 745
effective length of database: 365,853
effective search space: 272560485
effective search space used: 272560485
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)