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|15645981|ref|NP_208162.1| type III restriction enzyme
R protein [Helicobacter pylori 26695]
(968 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_224003.1| putative [Helicobacter pylori J99] 1748 0.0
ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobac... 43 4e-05
ref|NP_223200.1| cag island protein [Helicobacter pylori J99] 40 3e-04
ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter ... 39 5e-04
ref|NP_223629.1| putative [Helicobacter pylori J99] 33 0.026
ref|NP_223659.1| putative [Helicobacter pylori J99] 33 0.035
ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN... 33 0.045
ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Heli... 32 0.077
ref|NP_222986.1| putative LIPID A BIOSYNTHESIS ACYLTRANSFER... 32 0.077
ref|NP_223965.1| putative [Helicobacter pylori J99] 31 0.17
ref|NP_223539.1| IRON(III) DICITRATE TRANSPORT SYSTEM ATP-B... 30 0.22
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 30 0.38
ref|NP_224041.1| putative [Helicobacter pylori J99] 29 0.50
ref|NP_222961.1| putative [Helicobacter pylori J99] 29 0.50
ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN... 29 0.65
ref|NP_222912.1| putative [Helicobacter pylori J99] 28 0.85
ref|NP_222824.1| putative [Helicobacter pylori J99] 28 0.85
ref|NP_224204.1| putative [Helicobacter pylori J99] 28 1.1
ref|NP_223183.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 28 1.1
ref|NP_224135.1| CHROMOSOMAL REPLICATION INITIATOR PROTEIN ... 28 1.5
ref|NP_223404.1| putative [Helicobacter pylori J99] 27 1.9
ref|NP_223296.1| putative [Helicobacter pylori J99] 27 1.9
ref|NP_223994.1| putative [Helicobacter pylori J99] 27 2.5
ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 27 2.5
ref|NP_223055.1| putative [Helicobacter pylori J99] 27 2.5
ref|NP_222830.1| putative [Helicobacter pylori J99] 27 2.5
ref|NP_223914.1| phosphohexosemutase [Helicobacter pylori J99] 27 3.2
ref|NP_223787.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_223645.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_223536.1| CYSTEINYL-TRNA SYNTHETASE [Helicobacter py... 27 3.2
ref|NP_223342.1| UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE ... 27 3.2
ref|NP_223323.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_222967.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_222751.1| ATP-DEPENDENT PROTEASE,ATP-BINDING SUBUNIT... 27 3.2
ref|NP_224104.1| putative [Helicobacter pylori J99] 26 4.2
ref|NP_224075.1| putative [Helicobacter pylori J99] 26 4.2
ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 26 4.2
ref|NP_223058.1| putative hemolysin [Helicobacter pylori J99] 26 4.2
ref|NP_223056.1| transketolase [Helicobacter pylori J99] 26 4.2
ref|NP_222776.1| putative [Helicobacter pylori J99] 26 4.2
ref|NP_222767.1| putative TYPE II DNA MODIFICATION ENZYME (... 26 4.2
ref|NP_224081.1| DNA POLYMERASE I [Helicobacter pylori J99] 26 5.5
ref|NP_224051.1| putative [Helicobacter pylori J99] 26 5.5
ref|NP_223931.1| RNA POLYMERASE ALPHA SUBUNIT [Helicobacter... 26 5.5
ref|NP_223299.1| putative Outer membrane protein [Helicobac... 26 5.5
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 25 7.2
ref|NP_224109.1| putative [Helicobacter pylori J99] 25 7.2
ref|NP_223084.1| putative [Helicobacter pylori J99] 25 7.2
ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter p... 25 9.4
ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 25 9.4
ref|NP_223655.1| putative [Helicobacter pylori J99] 25 9.4
ref|NP_223623.1| putative [Helicobacter pylori J99] 25 9.4
ref|NP_223538.1| putative lipopolysaccharide biosynthesis p... 25 9.4
ref|NP_223497.1| PANTOTHENATE METABOLISM FLAVOPROTEIN [Heli... 25 9.4
ref|NP_223393.1| D-ALANINE--D-ALANINE LIGASE [Helicobacter ... 25 9.4
ref|NP_222832.1| PHOSPHOENOLPYRUVATE SYNTHASE [Helicobacter... 25 9.4
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 1748 bits (4528), Expect = 0.0
Identities = 868/965 (89%), Positives = 920/965 (94%), Gaps = 2/965 (0%)
Query: 1 MAKKKDLTTDNEIFVAQKLAEEELNTNEINEPLERLDFKSFDNNKELLDYQQQALINAFR 60
MAKKK +NEIFVAQKLAEEELN NEIN+PLE LDFKSFD+NKELLDYQQQALINAFR
Sbjct: 1 MAKKKQEVRNNEIFVAQKLAEEELNANEINDPLEMLDFKSFDDNKELLDYQQQALINAFR 60
Query: 61 MLVAYFRDFKENKKEFYAFYQKHYSFAHCDFAKKKLNPLLKSHFKVENHCVSFENFINRL 120
+LVAYFRDFKE+KKEFYAFYQKHYSFA+CDFAKKKLN LLKSHFKVENHCV FENFINRL
Sbjct: 61 VLVAYFRDFKESKKEFYAFYQKHYSFANCDFAKKKLNHLLKSHFKVENHCVRFENFINRL 120
Query: 121 AFYMATGSGKTIVIIKLVELLSVAIRMGLIPKKNIMFFSANENLIQQFEKEIEKYNRNKD 180
AFYMATGSGKTIVIIKLVELLSVA+ MGLIPKKNIMFFSANE+LI+QFEKEIEKYNRNKD
Sbjct: 121 AFYMATGSGKTIVIIKLVELLSVAMGMGLIPKKNIMFFSANEHLIKQFEKEIEKYNRNKD 180
Query: 181 YFKQIDFKSLKSVTHKDFYRAPKDSVIKQITLFYYRADLMNDEESKENLLNYKDYWDNGE 240
Y KQIDFK+LKSV +KDFYRAPKDS++K+I LFYYRADLM+DEESKENLLNYKD WDNGE
Sbjct: 181 YSKQIDFKNLKSVKNKDFYRAPKDSLMKEIALFYYRADLMSDEESKENLLNYKDCWDNGE 240
Query: 241 NYVILDEAHKGNKSESKRQAIFSLLSLKGFLFNFSATFTEESDLITAVYNLSVGEWVKLG 300
NYVILDEAHKGNK+ESKRQAIFSLLSLKGFLFNFSATFTEESDLITAVYNLSVGEWVKLG
Sbjct: 241 NYVILDEAHKGNKTESKRQAIFSLLSLKGFLFNFSATFTEESDLITAVYNLSVGEWVKLG 300
Query: 301 YGKESVLLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQKRYKTEGYFYDPLMLVFTH 360
YGKESVLLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQKRYK EGYF+DPLMLVFTH
Sbjct: 301 YGKESVLLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQKRYKVEGYFHDPLMLVFTH 360
Query: 361 SVNVKNSDAEIFFKTLARVIENDDGSDFLKAKEDLLEELKNPEFLFSD--DKDKDYKVKV 418
SVN++NSDAEIFFKTLARVIENDD SDF KAK+DLLEELKNPEFLFSD DK+KDYK++V
Sbjct: 361 SVNMENSDAEIFFKTLARVIENDDESDFSKAKDDLLEELKNPEFLFSDGKDKEKDYKIEV 420
Query: 419 FKEGLKSMDFKGLKEEVFYANNGHIEVIINPKNNQEIAFKLNTSDKVFCLIRIGDITEWI 478
FKE LK MDFKGLKE VFYA+NGHIEVIINPKNNQEIAFKLNTSDKVFCLIRIGDITEWI
Sbjct: 421 FKESLKGMDFKGLKEAVFYASNGHIEVIINPKNNQEIAFKLNTSDKVFCLIRIGDITEWI 480
Query: 479 CEKLKSVKVVSKNLSFKEESYFSQIDKSSINILVGSRTFDTGWDSTRPSVILFLNIGLDD 538
EKLKSVKVVSKNLSFKEESYFSQIDKSSINILVGSR FDTGWDSTRPSVILFLNIGLDD
Sbjct: 481 REKLKSVKVVSKNLSFKEESYFSQIDKSSINILVGSRAFDTGWDSTRPSVILFLNIGLDD 540
Query: 539 DAKKLVKQSFGRGVRIESVKNQRQRLAYLDIDGAIKKALKPNAAMLETLFVIPTNYASLE 598
DAKKLVKQSFGRGVRIESVKNQRQRLAYL+ID AIK LKPNAAMLE LFVIPTN+ASLE
Sbjct: 541 DAKKLVKQSFGRGVRIESVKNQRQRLAYLEIDEAIKDKLKPNAAMLEMLFVIPTNHASLE 600
Query: 599 AILKFQKESENKGENRGSWREIKLEKTPIKHALFVPCYRKEQTSILELPESASFKMSEKN 658
AILKFQKESEN GENRG WREIKLEKT I+HALFVPCYRKEQT+ L++ +SASFKMSEKN
Sbjct: 601 AILKFQKESENGGENRGPWREIKLEKTRIEHALFVPCYRKEQTNALKISQSASFKMSEKN 660
Query: 659 FKDLKEYFNLMSEKHFILKHEIYDPKDYMQLKKMTQEAHFNKVSTWHYKDLDYMISEIKG 718
FKDLKE+F+LMSEKHFILKHEIYDPKDY LK+M Q AHF KVSTWHYKDLDYMISEIKG
Sbjct: 661 FKDLKEHFHLMSEKHFILKHEIYDPKDYALLKEMIQTAHFKKVSTWHYKDLDYMISEIKG 720
Query: 719 KLYPNQKVPKDEFNALDSEKIVHFKRIKVKADKKEELVKTIQEVKEYAPLDKETLIKKIA 778
KLYPNQKVPKDEFNALD+EKIVHFKR+KVKADKKE+L++TIQEVKE+APLDKETL KKIA
Sbjct: 721 KLYPNQKVPKDEFNALDNEKIVHFKRVKVKADKKEKLIQTIQEVKEHAPLDKETLRKKIA 780
Query: 779 QGEIDPYDTEKHKQNKTFKVGGAELLKLKEHYYTPLIKAKNCDWLKHVVKVESESDFLEE 838
QGEIDPYDTEKHKQ++TFKVG AELLKLKEHYYTPLIKAKNCDWLKHVVKV+SESDFLEE
Sbjct: 781 QGEIDPYDTEKHKQDRTFKVGDAELLKLKEHYYTPLIKAKNCDWLKHVVKVKSESDFLEE 840
Query: 839 LLKITETLQENYDFWAFSKIDEHLDNLFIPYFNNAAERKFFPDFIFWLEKGGTQIICFID 898
LLKITETLQENYDFWAFSKIDEHLDNLFIPY +NA ER+FFPDFIFWL+KGGTQIICFID
Sbjct: 841 LLKITETLQENYDFWAFSKIDEHLDNLFIPYIDNATERRFFPDFIFWLQKGGTQIICFID 900
Query: 899 PKGSKHTDYEHKADAYQLFKDKIFNPKDNPNLKIKVVLKFYGDKDEVADGYRDYWIKKGK 958
PKGSKHTDYEHKADAYQLF+DK+FNPKD+PNLKIKVVLKFYGDKD+V + YRD WI+KGK
Sbjct: 901 PKGSKHTDYEHKADAYQLFEDKVFNPKDDPNLKIKVVLKFYGDKDDVGERYRDLWIEKGK 960
Query: 959 LEDFF 963
LE FF
Sbjct: 961 LEYFF 965
>ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobacter pylori J99]
Length = 1211
Score = 42.7 bits (99), Expect = 4e-05
Identities = 45/155 (29%), Positives = 76/155 (49%), Gaps = 31/155 (20%)
Query: 301 YGKESVLLKKNNLNAFKELKDLN---------DREKEIALLKALLLLGMQK--------- 342
YGK ++L + LNA +EL D+N + ++E+A L+ +L ++
Sbjct: 1060 YGKFELMLFEKQLNALEEL-DINKPLVFKCKIEEQEEVARLRLFEILDLESAREVKIPKA 1118
Query: 343 RYKTEGYFYDPLMLVFTHSVNVKNSDAEIFFKTLARVIENDDGSDFLK-AKEDLLE-ELK 400
RYK + + + + +S + LA V+END +FL+ KE L+ + K
Sbjct: 1119 RYKDPEKQKEDVREIPPMEMLASSSCS------LAIVLENDVKKEFLRQIKESALKHQGK 1172
Query: 401 NPEFLFSDDKDKDYKVK---VFKEGLKSMDFKGLK 432
P +L DKDK +K++ + E +K DFKGL+
Sbjct: 1173 RPLYLIIKDKDKQFKIQSDLMVNEKIKD-DFKGLE 1206
>ref|NP_223200.1| cag island protein [Helicobacter pylori J99]
Length = 199
Score = 40.0 bits (92), Expect = 3e-04
Identities = 36/131 (27%), Positives = 65/131 (49%), Gaps = 14/131 (10%)
Query: 742 FKRIKVKADKKEELVKTIQEVKEYAPLDKETLIKKIAQGEIDPYDTEKHKQNKTFKVGGA 801
F I DKKE+L++++QE + +K+ +I +I + KQ T K
Sbjct: 9 FSMIANSKDKKEKLIESLQENELLNTDEKKKIIDQIKTMH------DFFKQMHTNKGALD 62
Query: 802 ELLKLKEHYYTPLIKAKNCDWLKHVVK-VESESDFLEELLKITETLQENYDFWAFSKIDE 860
++L+ Y +IK+ D K V + +ESE+ +++ + EN +F FSK D
Sbjct: 63 KVLRNYMKDYRAVIKSIGVDKFKKVYRLLESET------MELLHAIAENPNF-LFSKFDR 115
Query: 861 HLDNLFIPYFN 871
+ +F+P+F+
Sbjct: 116 SILGIFLPFFS 126
Score = 25.8 bits (55), Expect = 5.5
Identities = 29/123 (23%), Positives = 55/123 (44%), Gaps = 21/123 (17%)
Query: 392 KEDLLEELKNPEFLFSDDKDKDY-KVKVFKEGLKSMDFKGLKEEVFYANNGHIE-VIINP 449
KE L+E L+ E L +D+K K ++K + K M + N G ++ V+ N
Sbjct: 19 KEKLIESLQENELLNTDEKKKIIDQIKTMHDFFKQM----------HTNKGALDKVLRNY 68
Query: 450 KNNQEIAFKLNTSDKVFCLIRIGDITEWICEKLKSVKVVSKNLSFKEESYFSQIDKSSIN 509
+ K DK + R+ + E ++ + +++N +F FS+ D+S +
Sbjct: 69 MKDYRAVIKSIGVDKFKKVYRLLE-----SETMELLHAIAENPNF----LFSKFDRSILG 119
Query: 510 ILV 512
I +
Sbjct: 120 IFL 122
>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 969
Score = 39.3 bits (90), Expect = 5e-04
Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 1/107 (0%)
Query: 362 VNVKNSDAEIFFKTLARVIENDDGSDFLKAKEDLLEELKNPEFLFSDDKDKDYKVKVFKE 421
++ ++ ++ FK++A+V+EN D + F + K++ E LK E LF + ++ K K+ +
Sbjct: 743 ISALSNKVKLSFKSVAKVLENIDENKFNEIKKNEQEGLKRLEELFLEIIYQNIKDKISYQ 802
Query: 422 GLKSMDFKGLKEEVFYANNGHIEVIINPKNNQEIAFKLNTSDKVFCL 468
++ K K + FY G I ++ + N+S + CL
Sbjct: 803 -MRETTIKNRKNDAFYDEKGEIREFLDGSLGADKYEIKNSSAQEKCL 848
>ref|NP_223629.1| putative [Helicobacter pylori J99]
Length = 487
Score = 33.5 bits (75), Expect = 0.026
Identities = 67/278 (24%), Positives = 119/278 (42%), Gaps = 48/278 (17%)
Query: 97 NPLLKSHFKVENHCVSFENFINRLAFYMATGS--GKTIVIIKLVELLSVAIRMGLIPKKN 154
N L +SH++ ++ FE + RL + KT + E S+++ L K +
Sbjct: 140 NILKQSHYRPKH----FEESVERLLILQKISALFPKTTTPL---EQSSLSLWAKLQDKLD 192
Query: 155 IMFFSANENLIQQFEKEIEKY--NRNKDYFKQIDFKSLKSVTHKDFYRAPKDSV-IKQIT 211
I+ + N+ I E+E++KY N KD+ K FK T ++ A + +K++
Sbjct: 193 ILILNPNDVKISLNEEEMKKYYENHRKDFKKPTSFK-----TRSLYFDASLEKTDLKELE 247
Query: 212 LFYYRADLMNDEESKENLLNYKDYWDNGENYVILDE--AHKGNKSESKRQAIFSLLSLK- 268
+Y++ N ++Y D +++ + E H N ++ +A+ S ++LK
Sbjct: 248 EYYHK-----------NKVSYLDKEGKLQDFKSVQEQVKHDLNMQKANEKALRSYIALKK 296
Query: 269 ---------GFLFNFSATFTEESDLITAVYNLSV--GEWVKLGYGKESVLLK-KNNLNAF 316
F N S E + +TA+ L V E K G+ ++ + K+ L F
Sbjct: 297 GNAQNYTTQDFEKNNSPYTAEITQKLTALKPLEVLKPEPFKDGFIVVQLVSQIKDELQNF 356
Query: 317 KELKD-LNDREKEIALLKALLLLGMQK----RYKTEGY 349
E K L R + L AL L +K + K+ GY
Sbjct: 357 DEAKSALKTRLTQEKTLMALQTLAKEKLKDFKGKSVGY 394
>ref|NP_223659.1| putative [Helicobacter pylori J99]
Length = 677
Score = 33.1 bits (74), Expect = 0.035
Identities = 28/100 (28%), Positives = 50/100 (50%), Gaps = 5/100 (5%)
Query: 8 TTDNEIFVAQK--LAEEELNTNEINEPLERLDFKSFDN-NKELLDYQQQALINAFRMLVA 64
T N F A+K E T + N+P +L+ +++ +K+L DYQ L+ A L+
Sbjct: 451 TFKNAYFSARKYQFMLESFKTKQ-NDPTYKLNDNTYELVSKQLQDYQNTMLLLAKERLLF 509
Query: 65 YFRDFKENKKEFYAFYQKHYSFAHCDFAKKKLNPLLKSHF 104
+D K+ ++EF ++HY + + + L+P K F
Sbjct: 510 LEQDLKQKEEEFER-AKEHYVKSSKHYRETSLSPKEKQGF 548
Score = 26.2 bits (56), Expect = 4.2
Identities = 31/134 (23%), Positives = 56/134 (41%), Gaps = 25/134 (18%)
Query: 218 DLMNDEESKENLLNYKDYWDNGENYVILDEAHKGNKSESKRQAIF-----------SLLS 266
DL +E++ E + + +D WD N + E + K ++K +A+ +
Sbjct: 243 DLEKEEKALEQIKSPQDEWDL--NKALQKEYLQELKDKNKAKALDIQNNHSTPLKQKISK 300
Query: 267 LKGFLFNFSATFTEESDLITA------------VYNLSVGEWVKLGYGKESVLLKKNNLN 314
K LFN T +E + ++ + N+S E +L + L KK N +
Sbjct: 301 FKIALFNHKDTSDDEKESLSIDRIDKRKPVSEHLKNMSKHELYELLGFYQKELDKKQNHS 360
Query: 315 AFKELKDLNDREKE 328
AFK LN +++
Sbjct: 361 AFKNFAILNGLDRD 374
>ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN 2 (HAP2) [Helicobacter
pylori J99]
Length = 685
Score = 32.7 bits (73), Expect = 0.045
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 8/96 (8%)
Query: 202 PKDSVIKQITLFYYRADLMNDEESKENLLNYKDYWDNGENYVILDEAHKGNKS--ESKRQ 259
P+ + IKQ +A E++ EN N+KD NG+ + +D H G +R
Sbjct: 242 PESASIKQKNAAIQKAM----EQALENDPNFKDLIANGD--ISIDTLHGGESLIINDRRG 295
Query: 260 AIFSLLSLKGFLFNFSATFTEESDLITAVYNLSVGE 295
+ K FS T T+ESDL+ + + G+
Sbjct: 296 GNIEVKGSKAKELGFSQTTTQESDLLKSARTIKEGK 331
Score = 25.0 bits (53), Expect = 9.4
Identities = 10/32 (31%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 158 FSANENLIQQFEKEIEKYNRNKDYFKQIDFKS 189
FS+ +++ Q + ++ Y +NKDY +D K+
Sbjct: 117 FSSRDDIFSQVDTTLKFYTQNKDY--AVDIKA 146
>ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 779
Score = 32.0 bits (71), Expect = 0.077
Identities = 123/563 (21%), Positives = 215/563 (37%), Gaps = 91/563 (16%)
Query: 122 FYMATGSGKTIVIIKLVELLSVAIRMGLIPKKNIMFFSANENLIQQFEKEIEKYNRNKDY 181
F MATGSGKT+V + L+ + G +N +FF + +++++ + +K
Sbjct: 2 FEMATGSGKTLV---MAGLILECYKQGY---QNFIFFVNSASILEKTKLNFTDSVSSKYL 55
Query: 182 FKQ--------IDFKSLKSV--THKDFYRAPKDSVIKQITLFYYRADLMNDEESKENLLN 231
F + + KS+ ++ +H + ++ +LF +KEN +
Sbjct: 56 FSENININDENTEIKSINNLNESHNNAINIYFSTIQGLFSLF---------TRAKENAIT 106
Query: 232 YKDYWDNGENYVILDEAH--------KGNKSE-SKRQAIFSLLSL------KGFLFNFSA 276
+D D + + DEAH K N SE S+++ S++ L L FSA
Sbjct: 107 LEDLKDQ-KLVFLADEAHHLNTETKKKLNDSEASEKRNWESVVKLALEQNKDNLLLEFSA 165
Query: 277 TFTEESDLITAVYNLSVGEWVKLGYGKESVLLKKNNLNAFKELKDLNDREKEIALLKALL 336
T +E + NL V + + ++ KN + E K+L R A + +L
Sbjct: 166 TIPKEKSVEDKYENLKVVTYTLKQFSEDKFC--KNIYSLSYENKELETRFLG-ACVSSLY 222
Query: 337 LLGMQKRYKTEGYFYDPLMLVFTHSVNVKNSDAEIFFKTLARV-------IENDDGSDFL 389
+ + + E + P +L + + + E F L + N + F
Sbjct: 223 KELLAQHHNIEN--FKPCILFKSERIEESKKNQERFNAFLENLSFLDLENFFNHSRNAFF 280
Query: 390 KAKEDLLEELKNPEFLFSDDKDKDYKVKVFKEG--LKSMDFKGLKEEVFYANNGHIEVII 447
KA + +E + L + ++K FKE + + + K L++ + N+ +E
Sbjct: 281 KAAKSFFDEQNHTPNLVALLQNK------FKESVQINTNNEKELEKSMLLLNS--LEDRD 332
Query: 448 NPKNNQEIAFKLNTSDKVFCLIRIGDITEWICEK--LKSVKVVSKNLSFKEESYFSQIDK 505
NPK KLN V L I + +K +K +++ + + FS D
Sbjct: 333 NPKRVIFSVDKLNEGWDVLNLFDIVRLKNKANQKDTIKDAQLIGRGARYYP---FSYNDF 389
Query: 506 SSINILVGSRTFDTGWDST-----------RPSVILFLNIGLDDDAKKLVKQSFGRGVRI 554
I R FD + I LN GL D L+++ I
Sbjct: 390 KPSRIEFYQRKFDLANPLSTLERLDYHAIYNSEFIAKLNKGLQDLGLGLIEK---EKTTI 446
Query: 555 ESVKNQRQRLAYLDIDGAIKKAL------KPNAAMLETLFVIPTNYASLEAILKFQKESE 608
+R + Y KK L P A L++L V + E + F++ E
Sbjct: 447 PLTPTKRFKCYYASNTKDKKKNLFNMDYSDPVEAKLKSLHVPLFAFGVREKQVDFKE--E 504
Query: 609 NKGENRGSWREIKLEKTPIKHAL 631
NKG+ R + L+K PI + L
Sbjct: 505 NKGD-RTYYMPHTLDKIPINYFL 526
>ref|NP_222986.1| putative LIPID A BIOSYNTHESIS ACYLTRANSFERASE [Helicobacter pylori
J99]
Length = 328
Score = 32.0 bits (71), Expect = 0.077
Identities = 24/93 (25%), Positives = 43/93 (45%), Gaps = 16/93 (17%)
Query: 374 KTLARVIENDDGSDFLKAKEDLLEELKNPEFLFSDDKDKDYKVKVFKEGLKSMDFKGLKE 433
K LA +++ D + AK +L +F+F D K ++ K ++ K+G ++ F L+
Sbjct: 56 KALAWLMKTFDRRRYFDAKANL-------DFVFGDSKSEEEKKRIIKKGYENFAFIILET 108
Query: 434 EVFYANNGHIEVIINPKNNQEIAFKLNTSDKVF 466
I VI PK+ + F L + V+
Sbjct: 109 ---------IRVIFIPKDEYDARFTLINEENVW 132
>ref|NP_223965.1| putative [Helicobacter pylori J99]
Length = 412
Score = 30.8 bits (68), Expect = 0.17
Identities = 52/276 (18%), Positives = 104/276 (36%), Gaps = 26/276 (9%)
Query: 133 VIIKLVELLSVAIRMGLIPKKNIMFFSAN----ENLIQQFEKEIEKYNRNKDYFKQID-- 186
V I+L+ L + +GL I F A IQ +++I+ + + + D
Sbjct: 13 VSIRLLTALLLLFSLGLAKDLEIQTFVAKYLSKNQKIQALQEQIDALDSQEKVVSKWDNP 72
Query: 187 --FKSLKSVTHKDFYRAPKDSVIKQITLFYYRADLMNDEESKENLLNYKDYWDNGENYVI 244
+ + DF+R + + DL + ++ ++N
Sbjct: 73 ILYLGYNNANVSDFFRLDSTLMQNMSLGLSQKVDLNGKKLTQSKMIN------------- 119
Query: 245 LDEAHKGNKSESKRQAIFSLLSLKGFLFNFSATFTEESDLI-TAVYNLSVGEWVKLGYGK 303
L++ K + + +Q + L + G + N+ +E +L+ TA+ NL + +
Sbjct: 120 LEKQKKILELKKTKQQLVINLMING-IENYKNQ--QEIELLNTAIKNLE-NTLYQANHSS 175
Query: 304 ESVLLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQKRYKTEGYFYDPLMLVFTHSVN 363
L+ L K L ++ + E+AL + +G + E P F +
Sbjct: 176 SPDLIAIAKLEILKSLLEIEKNDLEVALSSSHYSMGELTFKENEILSIAPKNFEFNNEQE 235
Query: 364 VKNSDAEIFFKTLARVIENDDGSDFLKAKEDLLEEL 399
+ N A + +AR+ E D AK+ LE++
Sbjct: 236 LHNISATNYDIAIARLDEEKAQKDITLAKKSFLEDI 271
>ref|NP_223539.1| IRON(III) DICITRATE TRANSPORT SYSTEM ATP-BINDING PROTEIN
[Helicobacter pylori J99]
Length = 255
Score = 30.4 bits (67), Expect = 0.22
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 21/103 (20%)
Query: 127 GSGKTIVIIKLVELLSVAIRMGLIPKKNIMFFSANENLI--QQFEK--------EIEKYN 176
GSGKT ++ L+ LL P + + N++++ + +EK ++E Y
Sbjct: 38 GSGKTTLLKCLLGLLK--------PLEETEIKACNKDILPLKPYEKAKLIAYIPQVEYYA 89
Query: 177 RNKDYFKQIDFKSLKSVTHKDFYRAPKDSVIKQITLFYYRADL 219
N F +DF + TH + + PK IK+ T R DL
Sbjct: 90 FN---FSVLDFVLMGKATHLNLFAMPKAKHIKEATSVLERLDL 129
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 29.6 bits (65), Expect = 0.38
Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 12/104 (11%)
Query: 360 HSVNVKNSDAEIFFKTLARVIENDDGSDFLKAKEDLLEELKNPEFLFSDDKDKDYKVKVF 419
++ N+ N DA ++ + G + + K+DLL ++KN F K
Sbjct: 357 YNANITNQDALKLYQLIFERTIESQGKNAIYDKQDLLFKIKNEYF------------KCS 404
Query: 420 KEGLKSMDFKGLKEEVFYANNGHIEVIINPKNNQEIAFKLNTSD 463
+GLKS F + + N+ + N + Q F L D
Sbjct: 405 VKGLKSAGFLAMFSKKELENDESNDDKDNKEKEQNAQFNLKIDD 448
>ref|NP_224041.1| putative [Helicobacter pylori J99]
Length = 692
Score = 29.3 bits (64), Expect = 0.50
Identities = 39/189 (20%), Positives = 75/189 (39%), Gaps = 44/189 (23%)
Query: 576 ALKPNAAMLETLFVIPTNYASLEAILKFQKESENK----------GENRGSWREIKLEKT 625
++KPN ++ + IP N AS+ A+L F + E K + E KL
Sbjct: 457 SIKPNDLVIISAKAIPGNEASVSAVLNFLIKKEAKVAYQEFDNIHVSGHAAQEEQKLMLR 516
Query: 626 PIKHALFVPCY-------RKEQTSI-LELPESASFKMSEKN--------------FKDLK 663
IK F+P + R +QT+I +PE + M + + K K
Sbjct: 517 LIKPKFFLPVHGEYNHVARHKQTAIACGVPEKNIYLMEDGDQVEVGPAFIKKVGTIKSGK 576
Query: 664 EYF----------NLMSEKHFILKHEIYDPKDYMQLKK--MTQEAHFNKVSTWHYKDLDY 711
Y +++ ++ + ++ ++ K + + + F+ + +KD +
Sbjct: 577 SYVDNQSNLSIDTSIVQQREEVASAGVFAATIFVNKNKQALLESSQFSSLGLVGFKDEKH 636
Query: 712 MISEIKGKL 720
+I EI+G L
Sbjct: 637 LIKEIQGGL 645
>ref|NP_222961.1| putative [Helicobacter pylori J99]
Length = 142
Score = 29.3 bits (64), Expect = 0.50
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 23 ELNTNEINEPLERLDFKSFDNNKEL----LDYQQQALINAFRMLVAYFRDFKENKKEFYA 78
EL NE E L++ S N EL L Q Q L +A RM + Y++ EN +
Sbjct: 29 ELQQNE-REVLDKQAQLSAFKNPELGGMSLFLQTQQLKSALRMEIEYYQQEGENLTKDLK 87
Query: 79 FYQKHYSFAHCDFAKKKL 96
+K Y A+ + K K+
Sbjct: 88 ILEKDYLLANQELEKAKI 105
>ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN 3 (HAP3) [Helicobacter
pylori J99]
Length = 828
Score = 28.9 bits (63), Expect = 0.65
Identities = 46/227 (20%), Positives = 91/227 (39%), Gaps = 35/227 (15%)
Query: 412 KDYKVKVFKEGLKSMDFKGLKEEVFYANNGHIEVIINPKNNQEIAFKLNTSDKVFCLIRI 471
K+ +K K+ +K + E+ NG + +I N I+F L+T D+
Sbjct: 433 KNSTIKDLKDAIKERFNNEVDVEI--ETNGRLRIIDNSSKESPISFALSTLDQ------- 483
Query: 472 GDITEWICEKLKSVKVVSKNLSFKEESYFSQIDKSSINILVGSRTFDTGWDSTRPSVILF 531
+ L+ + + N S +++YF++ + + + D ST+ S +
Sbjct: 484 --------KGLEVAGIPTNNASEYQKTYFNKEGAKLESNVAQTAQNDAANGSTKLSEV-- 533
Query: 532 LNIGLDDDAKKLVKQSFGRGVRIESVKNQRQRLAYLDIDGAIK-----------KALKPN 580
+ G +++ +K + G +E+ N A+L + +K +A KPN
Sbjct: 534 -SKGSLENSVFNMKLNDVNGSFLEAQINLDNNGAFLSLPNGVKIPLYDPTTADIQASKPN 592
Query: 581 AAMLETL---FVIPTNYASLEAILKFQKESENKGENRGSWREIKLEK 624
L I NY++ + + +Q+ S+N R I+L K
Sbjct: 593 EVTYRQLMDAMSIALNYSNTDPAI-YQQISDNPTSKESKERFIELLK 638
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 28.5 bits (62), Expect = 0.85
Identities = 21/71 (29%), Positives = 35/71 (48%), Gaps = 8/71 (11%)
Query: 141 LSVAIRMGLIPKKNIMFFSANENLIQQFEKEIEKY-------NRNKDYFKQIDFKSLKSV 193
LS+ + P K + N+ +F+K++E Y N +K Y ++ID +SLK +
Sbjct: 439 LSLFNKTNFNPNKIWIPLEFNKRSKIKFDKDLEIYFDSHESFNISKKYLQEIDQESLKKI 498
Query: 194 TH-KDFYRAPK 203
KDF+ K
Sbjct: 499 KQSKDFFSIQK 509
>ref|NP_222824.1| putative [Helicobacter pylori J99]
Length = 266
Score = 28.5 bits (62), Expect = 0.85
Identities = 38/186 (20%), Positives = 71/186 (37%), Gaps = 39/186 (20%)
Query: 232 YKDYWDNGENYVILDEAHKGNKSESKRQAIFSLLSLKGFLFNFSATFTEESDLIT--AVY 289
+++YW + +L K KS S+ +F+LL E+ LI +
Sbjct: 79 FENYWHKSLRFEVLKVNEKRLKSASENFGLFTLLKKPSLERLERVIECEKRFLILDFLAF 138
Query: 290 NLSVGEWVKL--------GYGKESVLLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQ 341
+ +VG VK+ G + V L ++NA + L E A + L+G++
Sbjct: 139 SCAVGYSVKMEKFLLELVGRSVKEVRLIAASVNALSLARQLERLEYSSAQITRFNLMGLK 198
Query: 342 -----------------KRYKTEGYFYDPLMLVFTHSVNVKNS------------DAEIF 372
+R+K +F +P ++ T + +N D E F
Sbjct: 199 TLLNSPLFFDILEGKVLERFKKGLHFIEPDCMLVTRPIEFQNERMQLLCVGKLECDYEGF 258
Query: 373 FKTLAR 378
F+T+++
Sbjct: 259 FQTISK 264
>ref|NP_224204.1| putative [Helicobacter pylori J99]
Length = 140
Score = 28.1 bits (61), Expect = 1.1
Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 6/98 (6%)
Query: 331 LLKALLLLGMQKRY-KTEGYFYDPLMLVFTHSVNVKNSDAEIFFKTLARVIENDDGSDFL 389
+LK LLL+ + + + EG Y+ + + + K E+ IE +
Sbjct: 1 MLKKLLLISLFLGFLRAEGEHYEIIAELSKAFLKAK----EVLTAINKTCIETGHDRTQI 56
Query: 390 KAKEDLLEELKNPEFLFSDDKDKDYK-VKVFKEGLKSM 426
+ + D LE L E F D +KD+K V V K LK +
Sbjct: 57 RLQNDFLENLSQTEQQFDDYFEKDFKSVGVLKTLLKDI 94
>ref|NP_223183.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 443
Score = 28.1 bits (61), Expect = 1.1
Identities = 26/105 (24%), Positives = 54/105 (50%), Gaps = 22/105 (20%)
Query: 747 VKADKKEELVKTIQEVKEYAPLDKETLIKKIAQGEIDPYDTEKHKQNKTFKVGG---AEL 803
V +KK+E ++ ++++ +IAQGE+D + E + K+ ++ E+
Sbjct: 145 VSEEKKQEYANSLLKMQQ-----------RIAQGELDSREIEIEVRKKSIEIDSNVPPEI 193
Query: 804 LKLKEHYYTPLIKA--KNCDWLKHVVKVESESDFLEELLKITETL 846
L+++E+ LIK K D +K + V+ + L+ +I++TL
Sbjct: 194 LRVQEN----LIKVFHKEQDKVKKTLSVKEAKEALK--AEISDTL 232
>ref|NP_224135.1| CHROMOSOMAL REPLICATION INITIATOR PROTEIN [Helicobacter pylori J99]
Length = 457
Score = 27.7 bits (60), Expect = 1.5
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 17/82 (20%)
Query: 118 NRLAFYMATGSGKTIVIIKLVELLSVAIRMGLIPKKNIMFFSANENLIQQFEKEIEKYNR 177
N + FY TG GKT ++ AI + K + +E+ + F K ++ N+
Sbjct: 144 NPVLFYGGTGLGKTHIL--------NAIGNHALEKHKKVVLVTSEDFLTDFLKHLD--NK 193
Query: 178 NKDYFKQIDFKSLKSVTHKDFY 199
N D FK K H DF+
Sbjct: 194 NMDSFK-------KKYRHCDFF 208
>ref|NP_223404.1| putative [Helicobacter pylori J99]
Length = 268
Score = 27.3 bits (59), Expect = 1.9
Identities = 32/129 (24%), Positives = 52/129 (39%), Gaps = 17/129 (13%)
Query: 264 LLSLKGFLFNFSATFTEESDLITAVYNLSVGEWVKLGYGKESVLLKKNNLNAFKELKDLN 323
L SL+ LF A +E LI Y++ + KLG + L + N N LK+++
Sbjct: 18 LFSLECVLFINQAIAQKEKKLIED-YSIVLASTQKLG-----LELLRQNFNEIIALKEID 71
Query: 324 DREKEIALLKALLLLGMQKRYKTEGYFYDPLMLVFTHSVNVKN-----------SDAEIF 372
L K L G+++ K +FY + F ++N E+F
Sbjct: 72 PNYSLEPLQKTLGADGLKELKKNLPFFYSLQLSTFPTQERLENIKEKLLKIPGVQKVEVF 131
Query: 373 FKTLARVIE 381
KT +V +
Sbjct: 132 AKTYMQVYD 140
>ref|NP_223296.1| putative [Helicobacter pylori J99]
Length = 512
Score = 27.3 bits (59), Expect = 1.9
Identities = 86/392 (21%), Positives = 150/392 (37%), Gaps = 54/392 (13%)
Query: 141 LSVAIRMGLIPKKNIMFF--SANENLIQQFEKEIEKYNRNKDYFKQIDFKSLKSVTHKDF 198
L + +R + K N+ F A+ + +F +++ + + F SLK +T
Sbjct: 27 LHLQVRFYSVYKDNMTSFYLQASAEITLEFAQKLSEI---LPFSLDFSFLSLKEITE--- 80
Query: 199 YRAPKDSVIKQITLFYYRADLMNDEESKENLLNYKDYWDNGENYVILDEAHKGNKSESKR 258
P D + Q T + MN +E ++ L N + N +I + A KG S +
Sbjct: 81 ---PLDENLFQTTSLS-KPLFMNAKEHQDFLDNNSSLYANTLG-LIENTAFKGKMIHSPK 135
Query: 259 QAIFSLLSLKGFL--FNFSATFTEESDLITAVYNLSVGEWVKLGYGKESVLLKKNNLNAF 316
+ I L LKG L +F T L ++ N S + + S +L L
Sbjct: 136 ELIDCLTQLKGMLKTQDFIPISTSRGALSFSLKNPS----PSVIFSDLSSVLTCTKL-PL 190
Query: 317 KELKDLNDREKEIALLKALLLLGMQKRYKTEGYF----YDPLMLVFTHSVNVKNSDAEIF 372
+ K L EK +KA L + +K + YDP++ + H
Sbjct: 191 ENAKYLASLEK--PSIKAPLKSVFKDTFKNDEIIAQLPYDPILNLLCH------------ 236
Query: 373 FKTLARVIENDDGSDFLKAKED-LLEELKNPEFLFSDDKDKDYKVK--VFKEGLKSMDFK 429
I D+G +F+ E E L + E LF K K V + L ++ F
Sbjct: 237 -------ILQDEGIEFVFMHESHSCEALLHYEALFKTPKRLITPTKNFVLENHLSTLPF- 288
Query: 430 GLKEEVFYANNGHIEVIINPKNNQEIAFKLNTSDKVFCLIRIGDITEWICEKLKSVKVVS 489
K+E+ + +++ + L+ + + L+ +G I LK + S
Sbjct: 289 --KDELEFLRETPNSIVLYFSFKRPTRLLLHANGSLKTLLSVGFDFNQIFNLLKQDEKAS 346
Query: 490 ---KNLSFKEESYFSQIDKSSINILVGSRTFD 518
KN + K ++++I + S LVG+ D
Sbjct: 347 RMLKNYATKFPDFYARIVELSQYNLVGANLLD 378
>ref|NP_223994.1| putative [Helicobacter pylori J99]
Length = 168
Score = 26.9 bits (58), Expect = 2.5
Identities = 14/47 (29%), Positives = 24/47 (50%)
Query: 39 KSFDNNKELLDYQQQALINAFRMLVAYFRDFKENKKEFYAFYQKHYS 85
KS D ++ L+ + L N F+ + Y + N+K+ YQ+ YS
Sbjct: 96 KSMDKERDYLEEKIITLENKFKDMGHYAASDEVNEKQVLKMYQEGYS 142
>ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 363
Score = 26.9 bits (58), Expect = 2.5
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 719 KLYPNQKVPKDEFNALDSEKIVHFKRIKVKADKKEELVKTIQEVKEYAPLDKET 772
KL+ Q +D ++++KI+ + + +EE KT+QEV +KET
Sbjct: 35 KLFLEQLKNQDPTAPMETDKIITQTAQLTQVEMQEENKKTMQEVASAMKSNKET 88
>ref|NP_223055.1| putative [Helicobacter pylori J99]
Length = 778
Score = 26.9 bits (58), Expect = 2.5
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 18/73 (24%)
Query: 413 DYKVKVFKEGLKSMDFKGLKEEVFY----------------ANNGHIEVIINPKNNQEIA 456
DY++ ++ LK++ +K + FY A H+E + PK QEI
Sbjct: 698 DYQMAIYVRALKNLGYKEPIKAFFYDLRKGELLEEDELTLQAKMDHLEFSLIPKLKQEID 757
Query: 457 FK--LNTSDKVFC 467
F+ L D +C
Sbjct: 758 FEKTLEVKDCEYC 770
>ref|NP_222830.1| putative [Helicobacter pylori J99]
Length = 308
Score = 26.9 bits (58), Expect = 2.5
Identities = 24/117 (20%), Positives = 54/117 (45%), Gaps = 5/117 (4%)
Query: 81 QKHYSFAHCDFAKKKLNPLLKSHFKVENHCVSFENFINRLA----FYMATGSGKTIVIIK 136
Q +Y+ +C+ K K ++ KVE + +N +N L T +G+ +
Sbjct: 32 QCNYNCIYCELGKAKPIERMEEVIKVETLISTIQNALNNLTTPIDVLTITANGEPTLYPH 91
Query: 137 LVELLSVAIRMGLIPKKNIMFFSANENLIQQFEKEIEKYNRNKDYFKQIDFKSLKSV 193
L+EL+ +I+ L K ++ + + + ++ +++++ K ID K+ + V
Sbjct: 92 LLELIQ-SIKPFLKGVKTLILSNGSLFYEPKVQQALKEFDIVKFSLDAIDLKAFERV 147
>ref|NP_223914.1| phosphohexosemutase [Helicobacter pylori J99]
Length = 459
Score = 26.6 bits (57), Expect = 3.2
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 301 YGKESVLLKKNNLNAFKELKDLNDREKEIALLKA 334
YGK+ LK LNA E+K L + +++ L+A
Sbjct: 122 YGKDIQALKNTLLNAKHEIKPLKETPEKVNALEA 155
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 26.6 bits (57), Expect = 3.2
Identities = 38/168 (22%), Positives = 66/168 (38%), Gaps = 43/168 (25%)
Query: 18 KLAEEELNTNEINEPLERLD------FKSFDNNKELLDYQQQALINAFRMLVAYFRDFKE 71
K EEE EI E +R + K F+N+K + Q ++ ++ KE
Sbjct: 168 KKNEEEFK--EILEGFKRKEKFKGKILKEFENDK----HNQSEIVGLEKL--------KE 213
Query: 72 NKKEFYAFYQKHYSFAHCDFAKKKLNPLLKSHFKVENHCVSFENFINRLAFYMATGSGKT 131
+ ++ Q + CD L +ENH + + + GSG
Sbjct: 214 KIEIVFSKNQTELALLECD---------LTDFDSIENHSIWEQKIV---------GSGD- 254
Query: 132 IVIIKLVELLS----VAIRMGLIPKKNIMFFSANENLIQQFEKEIEKY 175
+ I L++ LS VA + +I F E + ++F+K++E Y
Sbjct: 255 VAIANLIKTLSNEDWVAQGREYVKDNSICPFCQKETITEEFKKQLESY 302
Score = 26.2 bits (56), Expect = 4.2
Identities = 26/110 (23%), Positives = 44/110 (39%), Gaps = 1/110 (0%)
Query: 100 LKSHFKVENHCVSFENFINRLAFYMATGSGKTIVIIKLVELLSVAIRMGLIPKKNIMFFS 159
LK + + SFEN + Y A GSGKT L L I K I +++
Sbjct: 25 LKKVATFDENGASFENLKSINFIYGANGSGKTTTSSFLKNLAENGIEDKFANSK-IAWYN 83
Query: 160 ANENLIQQFEKEIEKYNRNKDYFKQIDFKSLKSVTHKDFYRAPKDSVIKQ 209
I+ + K+ ++ K I K+ + + + K+S+ K+
Sbjct: 84 NESLKIEVYNKQFKEEQLRNSQVKGIFTLGKKTNENLEKIESKKESINKE 133
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 26.6 bits (57), Expect = 3.2
Identities = 35/153 (22%), Positives = 63/153 (40%), Gaps = 13/153 (8%)
Query: 644 LELPESASFKMSEKNFKDLKEYF--NLMSEKHFILKHEIYDPKDYMQLKKMTQEAHFNKV 701
L L E F M N ++K N + + L+ EI + + K +E +FN+
Sbjct: 2002 LGLNELEDFNMGSSNASEMKAEATGNPLIIEEVKLRAEIKSEES--KYKAFNKEHYFNEE 2059
Query: 702 STWHYKD-LDYMISEIKGKLYPNQKVPKDEFNALDSEKIVHFKRIKVKADKKEELVKT-- 758
S + LDY+ E+K + V + + + +K + K EL+K
Sbjct: 2060 SLKNNASKLDYLKQELKDLETLQRSV------IIPTHTEIKLYDLKNEESKDYELIKVKE 2113
Query: 759 IQEVKEYAPLDKETLIKKIAQGEIDPYDTEKHK 791
++ +KE A + +E KK+ + + K K
Sbjct: 2114 VEPLKENASMSEELTHKKLKEQNKQIAEQNKEK 2146
>ref|NP_223536.1| CYSTEINYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 465
Score = 26.6 bits (57), Expect = 3.2
Identities = 29/126 (23%), Positives = 48/126 (38%), Gaps = 20/126 (15%)
Query: 793 NKTFKVGGA--ELLKLKEHYYTPLIKAKNCDWLKHVVKVESESDFLEELLKITETLQENY 850
NK FK + EL + YT + A N +K S++L+ ++++ ETL E
Sbjct: 75 NKAFKENKSIQELSSIYIESYTRDLNALN---VKQPSLEPKASEYLDAMVRMIETLLEKN 131
Query: 851 DFWAFSKIDEHLD---------------NLFIPYFNNAAERKFFPDFIFWLEKGGTQIIC 895
+ S D +LD ++ E++ DF+ W G +
Sbjct: 132 FAYRVSNGDIYLDTSKDKDYGSLSMHNSSVEFSRIGLVQEKRLEQDFVLWKSYKGDNDVG 191
Query: 896 FIDPKG 901
F P G
Sbjct: 192 FDSPLG 197
>ref|NP_223342.1| UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE [Helicobacter pylori J99]
Length = 433
Score = 26.6 bits (57), Expect = 3.2
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 300 GYGKESVLLKKNNLNAFKELKDLNDREKEIALLKA 334
GYG+ V+L+ + + E KD ND EK I + A
Sbjct: 136 GYGR--VILENHQVKKIVEEKDANDEEKTIKSVNA 168
>ref|NP_223323.1| putative [Helicobacter pylori J99]
Length = 335
Score = 26.6 bits (57), Expect = 3.2
Identities = 25/110 (22%), Positives = 51/110 (45%), Gaps = 16/110 (14%)
Query: 758 TIQEVKEYAPLDKETLIKKIAQGEIDPYDTEKHKQNKTFKVGGAELLKLKEHYYTPLIKA 817
T++E+ ++P + E L+K + Y+ EK E L+ E P I+
Sbjct: 127 TVKEILRFSPRNVEALLKL-----LHAYELEKDYSK------ALETLECLEELEVPKIET 175
Query: 818 -KNCDWLKHVVKVESESDFLEELLKITETLQENYDFWAFSKIDEHLDNLF 866
KN +L H+++ + ++ + + K + L++ A + + H +NLF
Sbjct: 176 IKNYLYLMHLIENKEDAAKILHVSKASLDLKK----IALNHLKSHDENLF 221
>ref|NP_222967.1| putative [Helicobacter pylori J99]
Length = 172
Score = 26.6 bits (57), Expect = 3.2
Identities = 21/81 (25%), Positives = 33/81 (39%), Gaps = 9/81 (11%)
Query: 61 MLVAYFRDFKENKKEFYAFYQKHYSFAHCDFAKKKLNPLLKSHFKVENHCVSFENFINRL 120
M++ F+DF E Y F Q Y+ F K+N +K +N + + R
Sbjct: 9 MILERFKDFMREYPEPYKFLQVFYAQEKERFLNHKMNDYIK-----QNKSKEEASILARQ 63
Query: 121 AFYMATGSGKTIVIIKLVELL 141
F G + K++ELL
Sbjct: 64 GFVSVIGR----ALEKIIELL 80
>ref|NP_222751.1| ATP-DEPENDENT PROTEASE,ATP-BINDING SUBUNIT [Helicobacter pylori
J99]
Length = 742
Score = 26.6 bits (57), Expect = 3.2
Identities = 27/119 (22%), Positives = 48/119 (39%), Gaps = 30/119 (25%)
Query: 93 KKKLNPLLKSHFK--VENHCVSFENFINRLAFYMATGSGKTIVIIKLVELLSVAIRMGLI 150
K+ L P L+S V + +S E+F + IV ++L +L ++A+ G+I
Sbjct: 619 KELLTPELRSRIDAIVPFNALSLEDF-------------ERIVSVELDKLKALALEQGVI 665
Query: 151 PKKNIMFFSANENLIQQFEKEIEKYNRNKDYFKQIDFKSLKSVTHKDFYRAPKDSVIKQ 209
K F KE+ K K Y + + +K + H + D ++ Q
Sbjct: 666 LK---------------FHKEVVKCIAQKSYQTTLGAREIKKIIHNEIKTQLSDILLLQ 709
>ref|NP_224104.1| putative [Helicobacter pylori J99]
Length = 203
Score = 26.2 bits (56), Expect = 4.2
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 909 HKADAYQLFKDKIFNPKDNPNLKIKVVL 936
H A+A +LF + +F KDN K+ +L
Sbjct: 25 HYAEALRLFSEVLFLDKDNQKAKVGALL 52
>ref|NP_224075.1| putative [Helicobacter pylori J99]
Length = 271
Score = 26.2 bits (56), Expect = 4.2
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 388 FLKAKEDLLEELKNPEFLFSDDKDKDYKVKVFKEGLK---SMDFKGLKEEVFYANNGHIE 444
F+ K LE+ N EF S DK + ++ +FKEGL S D + +EV A ++
Sbjct: 106 FMGLKFLALEQSHNEEFYGSGDKGE--RILIFKEGLMDRLSGDANQVVQEVMKAIR-NVN 162
Query: 445 VIINPKNNQEIAFKLNTSD 463
I++ +N ++ L + D
Sbjct: 163 RILDDENVEKFKHILASVD 181
>ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 875
Score = 26.2 bits (56), Expect = 4.2
Identities = 24/89 (26%), Positives = 46/89 (50%), Gaps = 11/89 (12%)
Query: 495 KEESYFSQIDKS----SINILVGSRTFDTGWDSTRPSVILFLNIGLDDDAK-KLVKQSFG 549
K +SY+ + + I++L+ + F TG+D+TR + + +D + K + Q+F
Sbjct: 497 KFQSYYKDLSQKMKEREIDLLLVANMFLTGFDATRLN-----TLWVDKNLKYHGLIQAFS 551
Query: 550 RGVRI-ESVKNQRQRLAYLDIDGAIKKAL 577
R RI +SVK + + D++ + AL
Sbjct: 552 RTNRILDSVKTHGNIVCFRDLEQDLNDAL 580
>ref|NP_223058.1| putative hemolysin [Helicobacter pylori J99]
Length = 235
Score = 26.2 bits (56), Expect = 4.2
Identities = 23/77 (29%), Positives = 36/77 (45%), Gaps = 3/77 (3%)
Query: 531 FLNIGLDDDAKKLVKQSFGRGVRIESVKNQRQRLAYLDID-GAIKKALKPNAAMLETLFV 589
F + L AKK++ G+ ES+KN ++ Y + D K K + A+ + F+
Sbjct: 90 FSQVALLKGAKKVLCVDVGKMQLDESLKNDQRIECYEECDIRGFKTPEKIDLALCDVSFI 149
Query: 590 IPTNYASLEAILKFQKE 606
+ Y LEAIL E
Sbjct: 150 --SLYCILEAILPLSGE 164
>ref|NP_223056.1| transketolase [Helicobacter pylori J99]
Length = 641
Score = 26.2 bits (56), Expect = 4.2
Identities = 17/70 (24%), Positives = 33/70 (46%), Gaps = 5/70 (7%)
Query: 495 KEESYFSQIDKSSINILVGSRTFDTGWDSTRPSVILFLNIGLDDDAKKLVKQSFGRGVRI 554
++ESYF ++ K + ++ SR + W +I + G KL ++ G +
Sbjct: 574 QDESYFKELFKGKVLVIEASRAIE--WYRFADKIIGMDSFGSSAKGDKLFEKF---GFSV 628
Query: 555 ESVKNQRQRL 564
E++ Q +RL
Sbjct: 629 ENITAQAKRL 638
>ref|NP_222776.1| putative [Helicobacter pylori J99]
Length = 522
Score = 26.2 bits (56), Expect = 4.2
Identities = 33/132 (25%), Positives = 49/132 (37%), Gaps = 9/132 (6%)
Query: 656 EKNFKDLKEYFNLMSEKHF--ILKHEIYDPKDYMQLKKMTQEAHFNKVSTWHYKDLDYMI 713
++NF+DL+E F+L S H EIY + M ++ K +
Sbjct: 82 KQNFRDLEEDFSLESFTHCTDFNPIEIYAYCISRSINNMENGVFLKYFLSYPIKYEKHQA 141
Query: 714 SEIKGKLYPNQK--VPKDEFNALDSEKIVHFKRIKVKADKKEELVKTIQEVKEYAPLDKE 771
+I+ K +P+ F D EK K KV+ E I +K Y E
Sbjct: 142 EKIRESFERGLKKSLPRHVF---DDEKTA--KTFKVELRASEPCAYAISALKSYGFFKSE 196
Query: 772 TLIKKIAQGEID 783
L K + G D
Sbjct: 197 KLDKPVYYGVFD 208
>ref|NP_222767.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 343
Score = 26.2 bits (56), Expect = 4.2
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 165 IQQFEKEIEKYNRNKDYFKQIDFKSLKSVTHKDFYRAPKDSVIKQITLFYYRADL 219
IQ F EI + N FK+I + ++K + FY K+ + + + Y DL
Sbjct: 114 IQNFRNEITRIKCNPKNFKRIGYGNIKDMIL--FYSKGKNPIFNEPKIPYTPQDL 166
>ref|NP_224081.1| DNA POLYMERASE I [Helicobacter pylori J99]
Length = 897
Score = 25.8 bits (55), Expect = 5.5
Identities = 43/173 (24%), Positives = 65/173 (36%), Gaps = 48/173 (27%)
Query: 307 LLKKNNLNAFKELKDLNDREKEIALLKALLLLGMQKRYKTEGYF-------YDPLMLVFT 359
L K N NA ++ + D++K+I L LL + +GYF + P L F
Sbjct: 337 LEKLENPNARVFMRLVLDKDKKILALAFLL--------QDQGYFLPLEEALFSPFSLEF- 387
Query: 360 HSVNVKNSDAEIFFKTLARVIENDDGSDFLKAK------------EDLLEELKNPEFLFS 407
++N+ +++ + FLKAK +L LKNPE +
Sbjct: 388 ----LQNAFSQMLQHACIIGHDLKPLLSFLKAKYQVPLENIRIQDTQILAFLKNPEKVGF 443
Query: 408 DDKDKDY----------------KVKVFKEGLKSMDFKGLKEEVFYANNGHIE 444
D+ K+Y K K K L SM+ LK Y G +E
Sbjct: 444 DEVLKEYLKEDLIPHEKIKDFKTKSKAEKSELLSMELNALKRLCEYFEKGGLE 496
>ref|NP_224051.1| putative [Helicobacter pylori J99]
Length = 259
Score = 25.8 bits (55), Expect = 5.5
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 17/129 (13%)
Query: 390 KAKEDLLEELKNPEFLFSDDKDKDYKVKVFKEGLKSMDFKGLKEEVFYANNGHIEVIINP 449
K ++ +EL L + D+D + + K D+ +EE +Y + +
Sbjct: 91 KMQDSSAKELICIASLHLEAMDRDQGLSLLKTADFRDDYCHKREESYYHARIYAKYAQTF 150
Query: 450 KNNQEIAFKLNTSDKVFCLIRIG--------DITEWICEKLKSVKVVSKNLSFKEES--- 498
+N K TSD + + G DI+ + E LKS K +S + SFK+ S
Sbjct: 151 HSNPYTNQKTPTSDLYYPALNEGNSFSIQTTDIS--VAELLKSKKFLSLDASFKKGSVLW 208
Query: 499 ----YFSQI 503
YFS++
Sbjct: 209 GGRPYFSEV 217
>ref|NP_223931.1| RNA POLYMERASE ALPHA SUBUNIT [Helicobacter pylori J99]
Length = 344
Score = 25.8 bits (55), Expect = 5.5
Identities = 27/107 (25%), Positives = 44/107 (40%), Gaps = 19/107 (17%)
Query: 679 EIYDPKDYMQLKKMTQEAHFNKVSTWHYKDLDYMISEIKGKLYPNQKVPKDEFNALDSEK 738
EI +P+ M L + ++A N S YK + Y+ SE +L P +P D
Sbjct: 130 EIVNPE--MPLATINEDAQLN-FSLIIYKGMGYVPSENTRELMPEGYMPLDGSFTPIKNV 186
Query: 739 IVHFKRIKVKADKKEELVKTIQEVKEYAPLDKETLIKKIAQGEIDPY 785
+ + + V+ D E K I +++ G+IDPY
Sbjct: 187 VYEIENVLVEGDPNYE--KIIFDIE--------------TDGQIDPY 217
>ref|NP_223299.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 307
Score = 25.8 bits (55), Expect = 5.5
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 709 LDYMISEIKGKLYPNQKVPKDEFNALDSEK 738
L+ I+ K L+PN K +D NAL++ K
Sbjct: 52 LNQAINNAKNSLFPNTKAIRDVQNALNAVK 81
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 25.4 bits (54), Expect = 7.2
Identities = 26/113 (23%), Positives = 49/113 (43%), Gaps = 10/113 (8%)
Query: 265 LSLKGFLFNFSATFTEESDLITAV------YNLSVGEWVKLGYGKESVLLKKNNLNAFKE 318
LS + F+F +AT + D I +V +++ + +K G + ++ +
Sbjct: 957 LSTESFIFA-NATLLDLRDKIESVGTPLKDWDIQINYGIKTGANEAFIIPTEKRDEILNA 1015
Query: 319 LKDLNDREKEIALLKALLLLGMQKRYKTEGYFYDPLMLVFTHSVNVKNSDAEI 371
K +RE+ L+K +L KRY Y + L+ TH+ N ++I
Sbjct: 1016 CKTQEERERTERLIKPILRGKDIKRY---SYEWAGEWLINTHNGYTSNLKSKI 1065
>ref|NP_224109.1| putative [Helicobacter pylori J99]
Length = 355
Score = 25.4 bits (54), Expect = 7.2
Identities = 14/66 (21%), Positives = 28/66 (42%)
Query: 345 KTEGYFYDPLMLVFTHSVNVKNSDAEIFFKTLARVIENDDGSDFLKAKEDLLEELKNPEF 404
KT+ Y L + + VK +D ++F + +++ + K+ LE +
Sbjct: 124 KTQNLIYKDNSLSVSEHLLVKYNDDYVYFDKINPLLQKAQNIKVFRLKDKTLESYAEAKE 183
Query: 405 LFSDDK 410
F +DK
Sbjct: 184 AFFEDK 189
>ref|NP_223084.1| putative [Helicobacter pylori J99]
Length = 160
Score = 25.4 bits (54), Expect = 7.2
Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 708 DLDYMISEIKGKLYPNQKVPKDEFNALDSEKIVHFKRIKVKADKKEELVKTIQEVKE 764
D + I EIK + QK+ +++ +L KI + KV A+ + +K+IQ++ +
Sbjct: 51 DKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENE---IKSIQDLMQ 104
>ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 326
Score = 25.0 bits (53), Expect = 9.4
Identities = 31/121 (25%), Positives = 50/121 (40%), Gaps = 17/121 (14%)
Query: 135 IKLVELLSVAIRM---GLIPKKNIMFFSANENLIQQFEKE-----IEKYNRNKDYFKQ-- 184
IK + L +AI + +KN + A ENL+Q F E IE N D +
Sbjct: 48 IKYISLTPLAIEFLNAQDLLRKNFCYTQALENLLQGFGAECREVMIELENHYLDIEEMMF 107
Query: 185 -IDFKSLKSVTHKDFYRAPKD----SVIKQITLFYYRADLMNDEESKENLLNYKDY--WD 237
+ F ++++ T + ++ S I++ L D N N L+ +DY W
Sbjct: 108 FVTFLNIENFTRSEIIEYVREYRSLSRIQKEKLKELAQDYCNPNHFNGNKLDKRDYHNWK 167
Query: 238 N 238
N
Sbjct: 168 N 168
>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 815
Score = 25.0 bits (53), Expect = 9.4
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 395 LLEELKNPEFLFSDDKDKDYKVKVFKEGLKSMDFKGLKEEVFYAN 439
+ +ELKN F SD K+ Y +K E +K + + L+ + F+A+
Sbjct: 481 VFKELKNTLFKKSD-KEGYYALKTECENIKDLITQSLEYQTFHAS 524
>ref|NP_223655.1| putative [Helicobacter pylori J99]
Length = 416
Score = 25.0 bits (53), Expect = 9.4
Identities = 14/43 (32%), Positives = 22/43 (50%)
Query: 721 YPNQKVPKDEFNALDSEKIVHFKRIKVKADKKEELVKTIQEVK 763
Y Q+ P NAL + KIV+ K + K E +T ++V+
Sbjct: 124 YLQQQCPWLNVNALTNNKIVNLKDLNNLITKNGEQTQTARDVQ 166
>ref|NP_223623.1| putative [Helicobacter pylori J99]
Length = 431
Score = 25.0 bits (53), Expect = 9.4
Identities = 26/102 (25%), Positives = 49/102 (47%), Gaps = 19/102 (18%)
Query: 39 KSFDNNKELLDYQQQALINAFRMLVAYFRDFKENKKEFYAFYQKHYSFAHCDFAKKKLNP 98
KS+ NK L A I A R+ + Y K+++ + Q+ +F +++ K+
Sbjct: 121 KSYQLNKNL------AFIGAKRLYLTYVM----TKEKYQVYAQREANF----YSQLKI-- 164
Query: 99 LLKSHFKVENHCVSFENFINRLAFYMATGSGKTIVIIKLVEL 140
+ KV+ +S +++IN Y+ + KT V KL++L
Sbjct: 165 ---AKEKVKAGSMSEKDYINFNNSYLESKLAKTNVETKLIDL 203
>ref|NP_223538.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
pylori J99]
Length = 373
Score = 25.0 bits (53), Expect = 9.4
Identities = 17/78 (21%), Positives = 32/78 (40%), Gaps = 13/78 (16%)
Query: 808 EHYYTPLIKAKNCDWLKHVVKVESESDFLEELLKITETLQENYDFWAFSKIDEHLDNLFI 867
+H+ P K +W + K ES E L+ ET F+++++H F
Sbjct: 297 KHFGYPYSK----EWHQVAFKTSFESLVFENLVGKIET---------FTELNDHNKKSFF 343
Query: 868 PYFNNAAERKFFPDFIFW 885
+ N +KF ++ +
Sbjct: 344 EFLNTRLNKKFLIQYVLF 361
>ref|NP_223497.1| PANTOTHENATE METABOLISM FLAVOPROTEIN [Helicobacter pylori J99]
Length = 425
Score = 25.0 bits (53), Expect = 9.4
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 18 KLAEEELNTNEINEPLERLDFKSF-DNNKELLDYQQQAL 55
K+ +NTN +N P+ + + K D+N +LD Q L
Sbjct: 134 KILAPSMNTNMLNSPIIQSNLKRLKDSNHIILDTQNALL 172
>ref|NP_223393.1| D-ALANINE--D-ALANINE LIGASE [Helicobacter pylori J99]
Length = 347
Score = 25.0 bits (53), Expect = 9.4
Identities = 12/34 (35%), Positives = 17/34 (49%)
Query: 72 NKKEFYAFYQKHYSFAHCDFAKKKLNPLLKSHFK 105
NK+EF F QK+ F+ K L+ L+ K
Sbjct: 236 NKQEFLDFKQKYLDFSRTKAPKANLSNALEEQLK 269
>ref|NP_222832.1| PHOSPHOENOLPYRUVATE SYNTHASE [Helicobacter pylori J99]
Length = 812
Score = 25.0 bits (53), Expect = 9.4
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 12 EIFVAQKLAE--EELNTNEINEPLERLDFKSFDNNKELL 48
EIF+ Q E + T E N+ E+ FK+ + KE++
Sbjct: 330 EIFIVQARPETVQSQKTKEENQVFEKFKFKNPNEKKEII 368
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 0.137 0.391
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,182,677
Number of Sequences: 1491
Number of extensions: 64621
Number of successful extensions: 323
Number of sequences better than 10.0: 56
Number of HSP's better than 10.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 271
Number of HSP's gapped (non-prelim): 89
length of query: 968
length of database: 494,079
effective HSP length: 87
effective length of query: 881
effective length of database: 364,362
effective search space: 321002922
effective search space used: 321002922
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)