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|15645674|ref|NP_207851.1| hypothetical protein
[Helicobacter pylori 26695]
(160 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223084.1| putative [Helicobacter pylori J99] 302 3e-84
ref|NP_222772.1| putative [Helicobacter pylori J99] 36 6e-04
ref|NP_223025.1| putative [Helicobacter pylori J99] 34 0.002
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 34 0.002
ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helico... 31 0.018
ref|NP_223618.1| putative [Helicobacter pylori J99] 30 0.041
ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori... 29 0.054
ref|NP_223322.1| putative [Helicobacter pylori J99] 28 0.092
ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter p... 28 0.12
ref|NP_223761.1| putative [Helicobacter pylori J99] 28 0.12
ref|NP_224003.1| putative [Helicobacter pylori J99] 27 0.20
ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pyl... 27 0.27
ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobact... 27 0.27
ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrop... 27 0.27
ref|NP_223994.1| putative [Helicobacter pylori J99] 26 0.45
ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEAS... 26 0.45
ref|NP_223459.1| putative lipopolysaccharide biosynthesis p... 26 0.45
ref|NP_223301.1| POLYNUCLEOTIDE ADENYLYLTRANSFERASE [Helico... 26 0.45
ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 26 0.45
ref|NP_222729.1| putative Outer membrane protein [Helicobac... 26 0.45
ref|NP_224131.1| putative [Helicobacter pylori J99] 26 0.59
ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99] 25 0.78
ref|NP_223773.1| putative [Helicobacter pylori J99] 25 1.0
ref|NP_223560.1| putative [Helicobacter pylori J99] 25 1.0
ref|NP_223045.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobact... 25 1.0
ref|NP_223023.1| putative [Helicobacter pylori J99] 25 1.0
ref|NP_223706.1| histidine kinase [Helicobacter pylori J99] 25 1.3
ref|NP_222912.1| putative [Helicobacter pylori J99] 25 1.3
ref|NP_223788.1| putative [Helicobacter pylori J99] 24 2.3
ref|NP_222961.1| putative [Helicobacter pylori J99] 24 2.3
ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99] 24 2.3
ref|NP_224134.1| putative [Helicobacter pylori J99] 23 2.9
ref|NP_223328.1| OXYGEN-INDEPENDENT COPROPORPHYRINOGEN III ... 23 2.9
ref|NP_223189.1| cag island protein [Helicobacter pylori J99] 23 2.9
ref|NP_223180.1| putative [Helicobacter pylori J99] 23 2.9
ref|NP_224202.1| abc transporter, ATP-binding protein [Heli... 23 3.8
ref|NP_223965.1| putative [Helicobacter pylori J99] 23 3.8
ref|NP_223688.1| putative PARALOG OF HpaA [Helicobacter pyl... 23 3.8
ref|NP_223638.1| putative [Helicobacter pylori J99] 23 3.8
ref|NP_223629.1| putative [Helicobacter pylori J99] 23 3.8
ref|NP_222977.1| putative [Helicobacter pylori J99] 23 3.8
ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANI... 23 5.0
ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPO... 23 5.0
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 23 5.0
ref|NP_223091.1| putative [Helicobacter pylori J99] 23 5.0
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 23 5.0
ref|NP_222783.1| putative [Helicobacter pylori J99] 23 5.0
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 22 6.6
ref|NP_223205.1| cag island protein [Helicobacter pylori J99] 22 6.6
ref|NP_224044.1| putative [Helicobacter pylori J99] 22 8.6
ref|NP_223760.1| putative [Helicobacter pylori J99] 22 8.6
ref|NP_223660.1| putative [Helicobacter pylori J99] 22 8.6
ref|NP_223362.1| EXCINUCLEASE ABC SUBUNIT A. [Helicobacter ... 22 8.6
ref|NP_222751.1| ATP-DEPENDENT PROTEASE,ATP-BINDING SUBUNIT... 22 8.6
>ref|NP_223084.1| putative [Helicobacter pylori J99]
Length = 160
Score = 302 bits (774), Expect = 3e-84
Identities = 153/160 (95%), Positives = 158/160 (98%)
Query: 1 MFGMGFFEILVVLVVAIIFLGPEKFPQAVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIK 60
MFGMGFFEILVVL+VAIIFLGPEKFPQAVVD+VKFFRAVKKTLNDAKDTLDKEINIEEIK
Sbjct: 1 MFGMGFFEILVVLIVAIIFLGPEKFPQAVVDIVKFFRAVKKTLNDAKDTLDKEINIEEIK 60
Query: 61 KETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLN 120
KETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDY++SLETNTIPNHLN
Sbjct: 61 KETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYKRSLETNTIPNHLN 120
Query: 121 EEVSNEEALNKEVSSDESPKEVQLATDNNTKEHDKEKENV 160
EEVSNEEALNKEVSSDESPKEVQL TDNN KEHDKEKE+V
Sbjct: 121 EEVSNEEALNKEVSSDESPKEVQLTTDNNAKEHDKEKEHV 160
>ref|NP_222772.1| putative [Helicobacter pylori J99]
Length = 220
Score = 35.8 bits (81), Expect = 6e-04
Identities = 37/125 (29%), Positives = 61/125 (48%), Gaps = 11/125 (8%)
Query: 40 KKTLNDAKDTLDKEINIEEIKKETL--EYQKLFENKVESLKGVKIEELEDAKVTAENEIK 97
++ L K L ++ + +KE L E + L + K ES K ++ EL+++K ENE
Sbjct: 102 RENLTKEKTELTEKNKVLTTEKERLATEKENLTKEKTESQK--QVNELKNSKQVLENE-- 157
Query: 98 SIQDLMQDYQKSLETNTIPNHLNEEVSNEEA-LNKEVSSDESPKEVQLATD--NNTKEHD 154
DL + K T N+ ++ E+ LN +++ + KE +LA D N TKE
Sbjct: 158 -KADLTNENTKLKTDKTDLTEKNQRLTTEKTELNNKITGLATEKE-RLAADKENLTKESR 215
Query: 155 KEKEN 159
+ K N
Sbjct: 216 QRKPN 220
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 34.3 bits (77), Expect = 0.002
Identities = 30/121 (24%), Positives = 54/121 (43%), Gaps = 4/121 (3%)
Query: 42 TLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQD 101
TLN+ + KE EE+KKE E +++ E E K E +D + ++E + +
Sbjct: 164 TLNEQEGETPKEEAQEEVKKE--EVKEMQEEVKEKQKQEVAENPQDEEKPKDDETQGSVE 221
Query: 102 LMQDYQ--KSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNNTKEHDKEKEN 159
+D + K LET EE +E + +E + K+ + + +E + +E
Sbjct: 222 PPKDEEVSKELETQEELETPKEETQEQEPIKEETQEIKEEKQEKTQDSPSAQELEAMQEL 281
Query: 160 V 160
V
Sbjct: 282 V 282
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 34.3 bits (77), Expect = 0.002
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 19/105 (18%)
Query: 47 KDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELED-----------AKVTAENE 95
K+ KE ++E KE + +KL N E+L+ + L D AKV +
Sbjct: 46 KEAKTKESKVKETAKEPIPVKKLSFN--EALEELFANSLSDCVSYESIIQISAKVPTLAQ 103
Query: 96 IKSIQDLMQDYQKSLETNTIPNHLNEEVSNEEALNKEVSSDESPK 140
IK I++L Q YQK L ++ +E A++K +++E K
Sbjct: 104 IKKIKELCQKYQKKLVSS------SEYAKKLNAIDKIKNTEEKQK 142
>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
Length = 949
Score = 30.8 bits (68), Expect = 0.018
Identities = 27/104 (25%), Positives = 45/104 (42%), Gaps = 9/104 (8%)
Query: 52 KEINIEEIKKETLEYQKLFENKVESL----KGVKIEELEDAKVTAENEIKSIQDLMQDYQ 107
KE IKK+ +E FEN+ + K V ++E AK +++ IQ +
Sbjct: 114 KEAPAPIIKKKEIEIVNTFENQTPLVENTPKAVSHSQIEKAK----QKLQEIQKSREALN 169
Query: 108 KSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNNTK 151
K ++NT + SN KE+ S+ +E ++ N K
Sbjct: 170 KLTQSNTNTTNNANSASNVSNAKKEI-SEVKKQEQEIKRHENIK 212
>ref|NP_223618.1| putative [Helicobacter pylori J99]
Length = 340
Score = 29.6 bits (65), Expect = 0.041
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 10/74 (13%)
Query: 35 FFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAEN 94
F ++ +L KD + EI + K+E QK E + +LED K EN
Sbjct: 275 FNECLENSLKGLKDRCELEITHK--KQEIALAQKEKEKH--------LNDLEDQKQILEN 324
Query: 95 EIKSIQDLMQDYQK 108
+I ++ DL Q Y K
Sbjct: 325 KINALSDLEQQYLK 338
>ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 849
Score = 29.3 bits (64), Expect = 0.054
Identities = 20/86 (23%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 73 KVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEEALNKE 132
K+ +++ ++ LED+K + +E +++ L ++ +K+LE + E + EEA+ +
Sbjct: 432 KMLNIESTALKSLEDSKQSIVDEA-ALKALEEERKKALEQAEQGCSIGE--NKEEAVASK 488
Query: 133 VSSDESPKEVQLATDNNTKEHDKEKE 158
+ +E+ E +N T+ + KE
Sbjct: 489 ENKEENKTEAAAPKENQTENKTEVKE 514
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 28.5 bits (62), Expect = 0.092
Identities = 22/89 (24%), Positives = 38/89 (41%), Gaps = 24/89 (26%)
Query: 71 ENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEEALN 130
++KVE+L+G K E D K+ E+KS +E+ N+E N
Sbjct: 23 DSKVEALEGRKQESSLDKKI--RQELKS----------------------KELKNKELKN 58
Query: 131 KEVSSDESPKEVQLATDNNTKEHDKEKEN 159
K++ + E KE + + H + +N
Sbjct: 59 KDLKNKEEKKETKAKRKPRAEVHHGDAKN 87
>ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter pylori J99]
Length = 588
Score = 28.1 bits (61), Expect = 0.12
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 80 VKIEELEDAKVTAENEIKSI---QDLMQDYQKSLETNTIPNHLNEEVSNEEALNKEVSSD 136
V + L+D K EN+ I + ++Y K L+ ++ N+E EV
Sbjct: 166 VGVASLQDLKDDEENQYSQIVGKTGIEKEYNKFLQGKVGYKIIHVNALNQELATLEVVPP 225
Query: 137 ESPKEVQLATDNN-TKEHDKEKEN 159
+ +QL+ D KE DK EN
Sbjct: 226 SANNHLQLSLDKRLQKEADKLFEN 249
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 28.1 bits (61), Expect = 0.12
Identities = 20/70 (28%), Positives = 35/70 (49%), Gaps = 2/70 (2%)
Query: 93 ENEIKSIQDLMQDYQKSLETNTIPNHLNE-EVSNEEALNK-EVSSDESPKEVQLATDNNT 150
+ + S +DL++D + ET P HL+ E++N E L K E +S +E A +
Sbjct: 280 QKPLTSQEDLLKDTENLNETTPKPTHLSPLELANAEKLAKLESEQLQSEQEFLKAKEQEL 339
Query: 151 KEHDKEKENV 160
K + K+ +
Sbjct: 340 KRKEALKKKL 349
Score = 22.3 bits (46), Expect = 6.6
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 48 DTLDKEINIEEIKKETLEYQKLFENKVESLKGVK 81
+ +DK + +E + +EYQ + ++ KG K
Sbjct: 877 EVIDKGVKVERNGRVAIEYQNIRVGLKDNWKGEK 910
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 27.3 bits (59), Expect = 0.20
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 51 DKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQ 104
D + I EIK + QK+ +++ +L KI + KV A+ + K IQ + +
Sbjct: 710 DLDYMISEIKGKLYPNQKVPKDEFNALDNEKIVHFKRVKVKADKKEKLIQTIQE 763
>ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pylori J99]
Length = 567
Score = 26.9 bits (58), Expect = 0.27
Identities = 35/147 (23%), Positives = 64/147 (42%), Gaps = 23/147 (15%)
Query: 26 PQAVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEEL 85
P+ ++ VK +++ + D L+ N +E+ E L Y++ FEN +E+ KI +
Sbjct: 205 PKLTIENVKIVNENGESIGEG-DILE---NSKELALEQLRYKQNFENILEN----KIVNI 256
Query: 86 EDAKVTAENEIKSIQDLMQDYQKSLET-------NTIPNHLNEEVSNEEALNKEVS---- 134
V +N++ + + D+ + T N + + N E E A K+V
Sbjct: 257 LAPIVGGKNKVVARVNAEFDFSQKKSTKETFDPNNVVRSEQNLEEKKEGAPKKQVGGVPG 316
Query: 135 --SDESPKEVQLATDNNTKEHDKEKEN 159
S+ P VQ DN E ++ +N
Sbjct: 317 VVSNIGP--VQGLKDNKEPEKYEKSQN 341
>ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobacter pylori J99]
Length = 232
Score = 26.9 bits (58), Expect = 0.27
Identities = 16/54 (29%), Positives = 27/54 (49%)
Query: 52 KEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQD 105
K+ + + E L +K+F ++ GVK+ +E+AK E K I M+D
Sbjct: 142 KKSDFDTAYAEALTQKKVFGVPYDTENGVKLGNVEEAKKAYLEEAKKITADMKD 195
>ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrophosphorylase
[Helicobacter pylori J99]
Length = 470
Score = 26.9 bits (58), Expect = 0.27
Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 2/92 (2%)
Query: 62 ETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNE 121
E+LE FE K+ L +++LED + +S + M + N L E
Sbjct: 216 ESLENTHFFEQKIARLSEKSMQDLEDMSIDIALMQQSHKIKMVELNAKWSDLGNFNALFE 275
Query: 122 EVSNEEALNKEVSSDESPKEVQLATDNNTKEH 153
E +N + VS +++P + +T+N H
Sbjct: 276 EAAN--GTKENVSLNQTPIFAKESTNNLVFSH 305
>ref|NP_223994.1| putative [Helicobacter pylori J99]
Length = 168
Score = 26.2 bits (56), Expect = 0.45
Identities = 18/90 (20%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 53 EINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLET 112
E ++E +E Y K L+G+ +E+ + + + + + +Q+ QKS++
Sbjct: 41 EKTLDESYQENYLYSKRLRELEGRLEGLSLEKSAKEDSSLKTTLSHLYNQLQEIQKSMDK 100
Query: 113 NTIPNHLNEEVSNEEALNKEVSSDESPKEV 142
++L E++ E K++ + EV
Sbjct: 101 ER--DYLEEKIITLENKFKDMGHYAASDEV 128
>ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEASING FACTOR) (RRF)
[Helicobacter pylori J99]
Length = 185
Score = 26.2 bits (56), Expect = 0.45
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 6/56 (10%)
Query: 38 AVKKTLNDAKDTL-----DKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDA 88
AV+ T DA + + DKEI+ +E KK + QK+ + ++ + ++ EDA
Sbjct: 127 AVRNTRQDANNKVKKLEKDKEISEDESKKAQEQIQKITDEAIKKI-DESVKNKEDA 181
>ref|NP_223459.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
pylori J99]
Length = 292
Score = 26.2 bits (56), Expect = 0.45
Identities = 14/61 (22%), Positives = 32/61 (51%), Gaps = 3/61 (4%)
Query: 43 LNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDL 102
LN+A L+ +I ++E KE+LE+ + + L +++ LE+ + +K + +
Sbjct: 129 LNEAICILEDDITLKEHFKESLEFCR---QHINELGYIRLMHLEENVAKQKTPVKGVSQI 185
Query: 103 M 103
+
Sbjct: 186 L 186
>ref|NP_223301.1| POLYNUCLEOTIDE ADENYLYLTRANSFERASE [Helicobacter pylori J99]
Length = 402
Score = 26.2 bits (56), Expect = 0.45
Identities = 36/155 (23%), Positives = 60/155 (38%), Gaps = 5/155 (3%)
Query: 6 FFEILVVLVVAIIFLGPEKFPQAVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIKKETLE 65
FFE + ++ A+ F F A F + +K+ L E+N + K E
Sbjct: 155 FFEDALRILRALRFSATLGFKIAASTKRAVFACKDLLKHLSKERLQSELNKLLMGKNAYE 214
Query: 66 YQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSN 125
K ++ +E + KIE L K N + + +QKSLE P +
Sbjct: 215 VAKEYQEILELVTQEKIENLGFLKNAPLNLELRLLGFFK-HQKSLENLRYPKKTCVLFAQ 273
Query: 126 EEALNKEVSSDESPKEVQLATDNNTKEHDKEKENV 160
+ +K + S E++ K+HD E N+
Sbjct: 274 AKECHKAFLNIHSKTELKFL----LKDHDLEPFNL 304
>ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 856
Score = 26.2 bits (56), Expect = 0.45
Identities = 27/102 (26%), Positives = 51/102 (49%), Gaps = 13/102 (12%)
Query: 56 IEEIKKETLEYQKLFENKVESLKGVK--IEELEDAKVTAENEIKSIQDLMQDYQKS--LE 111
+ ++K+E ++ + FEN+ E K + E+E K AE ++ DYQ++ +E
Sbjct: 445 LSDLKEEKIQLEAQFENEKEVFKEISRLKMEMEGLKKEAERFKRN-----GDYQQAAEIE 499
Query: 112 TNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLA-TDNNTKE 152
+ IP +E +E +K + ++ +Q A T+NN E
Sbjct: 500 YSKIP---EKEKKEKELQHKWETMQQNGALLQNALTENNIAE 538
>ref|NP_222729.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 668
Score = 26.2 bits (56), Expect = 0.45
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 118 HLNEEVSNEEALNKEVSSDESPKEVQLATDN---NTKEHDKEKEN 159
+L+ ++N LN+ V++ SP E+ A DN NT+ EK N
Sbjct: 52 NLSNLLTNFNNLNQAVTNASSPSEINAAIDNLKANTQGLIGEKTN 96
>ref|NP_224131.1| putative [Helicobacter pylori J99]
Length = 115
Score = 25.8 bits (55), Expect = 0.59
Identities = 17/56 (30%), Positives = 32/56 (56%), Gaps = 4/56 (7%)
Query: 95 EIKSIQDLMQDYQKSLETNTIPNHLN--EEVSNEEALNKEVSSDESPKEVQLATDN 148
+IK I+ +D + + E N + N+ N +E++NEE N + S + +Q AT++
Sbjct: 50 DIKKIEHEEEDEKVTKEVNDLINNENKIDEINNEE--NADPSQKRTNNVLQRATNH 103
>ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99]
Length = 451
Score = 25.4 bits (54), Expect = 0.78
Identities = 18/77 (23%), Positives = 45/77 (58%), Gaps = 6/77 (7%)
Query: 48 DTLDKEINIEEIKKETLEYQK--LFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQD 105
+ LD++I + ++ K +E + LF N + S++ +++ L+D++ A+ + +S ++ D
Sbjct: 299 ENLDEKI-LFDLPKTIIEQEMDLLFRNALYSMQAEEVKSLQDSQEKAKEKRESFRN---D 354
Query: 106 YQKSLETNTIPNHLNEE 122
KS++ + + L +E
Sbjct: 355 ATKSVKITFVIDALAKE 371
>ref|NP_223773.1| putative [Helicobacter pylori J99]
Length = 263
Score = 25.0 bits (53), Expect = 1.0
Identities = 22/96 (22%), Positives = 42/96 (42%), Gaps = 17/96 (17%)
Query: 19 FLGPEKFPQAVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLK 78
FL P++ P+ + + + +LND ++ DK +E K E E ++L
Sbjct: 75 FLEPKEEPKEEPE--ESLEDIFSSLNDFQEKTDKNAQKDEQKNEQEEQRRL--------- 123
Query: 79 GVKIEELEDAKVTAENE--IKSIQDLMQDYQKSLET 112
E + K EN+ +K +Q + + + LE+
Sbjct: 124 ----REQQRLKQNQENQEMLKGLQQNLNQFTQKLES 155
>ref|NP_223560.1| putative [Helicobacter pylori J99]
Length = 524
Score = 25.0 bits (53), Expect = 1.0
Identities = 16/71 (22%), Positives = 30/71 (41%), Gaps = 6/71 (8%)
Query: 92 AENEIKSIQDLMQDYQKSLETNT--IPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNN 149
++NE K + +Q +L PNH N + N V ++ K++Q
Sbjct: 135 SKNEKKPNEVASNAHQTNLPNKNPITPNHANNAIKNPTTPTHNVKDPKTLKDIQTL---- 190
Query: 150 TKEHDKEKENV 160
+++HD N+
Sbjct: 191 SQKHDLNASNI 201
>ref|NP_223045.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobacter pylori J99]
Length = 343
Score = 25.0 bits (53), Expect = 1.0
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Query: 26 PQAVVDVVKFFRA--VKKTLNDAKDTLDKEI-----NIEEIKKETLE-YQKLFENKVESL 77
PQ + ++ A +TL+ D + EI N+ EI + ++ + ENK+ESL
Sbjct: 139 PQTIALILAHMEAPNAAETLSYFPDEMKAEISIRMANLGEISPQVVKRVSTVLENKLESL 198
Query: 78 KGVKIE 83
KIE
Sbjct: 199 TSYKIE 204
Score = 21.9 bits (45), Expect = 8.6
Identities = 16/74 (21%), Positives = 40/74 (53%), Gaps = 2/74 (2%)
Query: 28 AVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELED 87
A+ +++K A KK L+ A T +++ + + + + F +++ L VKI++++
Sbjct: 258 AIREILKV--ADKKDLSLALKTSTQDLTDKFLNNMSSRAAEQFVEEMQYLGAVKIKDVDV 315
Query: 88 AKVTAENEIKSIQD 101
A+ ++S+Q+
Sbjct: 316 AQRKIIEIVQSLQE 329
>ref|NP_223023.1| putative [Helicobacter pylori J99]
Length = 79
Score = 25.0 bits (53), Expect = 1.0
Identities = 10/45 (22%), Positives = 23/45 (50%)
Query: 10 LVVLVVAIIFLGPEKFPQAVVDVVKFFRAVKKTLNDAKDTLDKEI 54
++VL+V ++ G +K P+ + + KK + D ++ E+
Sbjct: 11 VIVLLVIVLLFGAKKIPELAKGLGSGIKNFKKAVKDDEEEAKNEL 55
>ref|NP_223706.1| histidine kinase [Helicobacter pylori J99]
Length = 815
Score = 24.6 bits (52), Expect = 1.3
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 93 ENEIKSIQDLM-QDYQKSLETNTIPNHLNEEVS--NEEALNKEVSSDESPKEVQLATDN 148
E +K +Q + Q+ + + ET+ +EV N+E +EV ++++P L +DN
Sbjct: 120 EEVVKKLQAITSQNLEGAKETSGTKEAPEKEVKKENKEKAKEEVKANKTPTTENLTSDN 178
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 24.6 bits (52), Expect = 1.3
Identities = 15/76 (19%), Positives = 38/76 (49%), Gaps = 3/76 (3%)
Query: 40 KKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSI 99
K+ N+ + ++K +EIKK+ ++ ++E+ + E+ + + +K+I
Sbjct: 215 KRQFNEFESNIEKH---DEIKKDFERNKESLIREIENHCKNECNSEEEPEYKINDLLKNI 271
Query: 100 QDLMQDYQKSLETNTI 115
Q + ++Y +S N +
Sbjct: 272 QQICKNYIESHAVNDV 287
>ref|NP_223788.1| putative [Helicobacter pylori J99]
Length = 433
Score = 23.9 bits (50), Expect = 2.3
Identities = 18/82 (21%), Positives = 34/82 (40%)
Query: 52 KEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLE 111
KE IE +K+E E + + + E K+E + A +E ++ Q+ Q +
Sbjct: 134 KEAEIERLKRENNEAESRLKAENEKKLNEKLELEREKIEKALHEKNELKFKQQEEQLEML 193
Query: 112 TNTIPNHLNEEVSNEEALNKEV 133
N + N + + + EV
Sbjct: 194 RNELKNAQRKAELSSQQFQGEV 215
>ref|NP_222961.1| putative [Helicobacter pylori J99]
Length = 142
Score = 23.9 bits (50), Expect = 2.3
Identities = 15/58 (25%), Positives = 32/58 (54%), Gaps = 6/58 (10%)
Query: 59 IKKETLEYQKLFENKVESLKGVKIE------ELEDAKVTAENEIKSIQDLMQDYQKSL 110
++ E YQ+ EN + LK ++ + ELE AK+ E E + +++++ +++L
Sbjct: 68 LRMEIEYYQQEGENLTKDLKILEKDYLLANQELEKAKIILEKEKQKEKEILEKKEQAL 125
>ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99]
Length = 714
Score = 23.9 bits (50), Expect = 2.3
Identities = 21/74 (28%), Positives = 37/74 (49%), Gaps = 14/74 (18%)
Query: 52 KEINIEEIKKETLEYQKLFENKVE---SLKGVKIEE--------LEDAKVTAENE---IK 97
KE EI K LE +KL ++++E +L +++E LED +V A E
Sbjct: 636 KEERDAEILKTILELEKLGKDRIEVQHALMPFELQEKYKARNMRLEDEEVRARGEHLYSF 695
Query: 98 SIQDLMQDYQKSLE 111
++ DL+ + +L+
Sbjct: 696 NVHDLLDQHNANLK 709
>ref|NP_224134.1| putative [Helicobacter pylori J99]
Length = 479
Score = 23.5 bits (49), Expect = 2.9
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 56 IEEIKKETLEYQKLFENKVESLKGV----KIEELEDAKVT 91
+ +I KE+ EY++ +N V +GV +IEE AK T
Sbjct: 418 LNDIIKESSEYKEWVKNHVRFKEGVCMALEIEEQPRAKST 457
>ref|NP_223328.1| OXYGEN-INDEPENDENT COPROPORPHYRINOGEN III OXIDASE [Helicobacter
pylori J99]
Length = 457
Score = 23.5 bits (49), Expect = 2.9
Identities = 10/28 (35%), Positives = 16/28 (56%)
Query: 106 YQKSLETNTIPNHLNEEVSNEEALNKEV 133
Y+K+L+ +P +S E+ L KEV
Sbjct: 348 YEKALDLGHLPVERGVALSQEDVLRKEV 375
Score = 21.9 bits (45), Expect = 8.6
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 47 KDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAK 89
+D L KE+ ++ + L+Y K+ E K +ELE K
Sbjct: 368 EDVLRKEVIMQMMSNLKLDYSKIEEKFSIDFKAHFKKELEKLK 410
>ref|NP_223189.1| cag island protein [Helicobacter pylori J99]
Length = 481
Score = 23.5 bits (49), Expect = 2.9
Identities = 17/64 (26%), Positives = 29/64 (44%), Gaps = 3/64 (4%)
Query: 41 KTLNDAKDTLDKEINIEEIKKETLEYQKLFENK---VESLKGVKIEELEDAKVTAENEIK 97
K + K+T + + + +KKE + Q++ +NK S+ K + L D T K
Sbjct: 30 KVIKATKETKETKKEAKRLKKEAKQRQQIPDNKKPQYVSVDDTKTQALFDIYDTLNVNDK 89
Query: 98 SIQD 101
S D
Sbjct: 90 SFGD 93
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 23.5 bits (49), Expect = 2.9
Identities = 17/57 (29%), Positives = 31/57 (53%), Gaps = 6/57 (10%)
Query: 102 LMQDYQKSLETNTI-----PNHLNEEVSNEEALNKEVSSD-ESPKEVQLATDNNTKE 152
L+ D Q+ L T T+ +HL++EV EE + ++SD + K+ +L + K+
Sbjct: 74 LIIDGQQRLTTITLLCIALRSHLSDEVKREEIESYLINSDKDGDKKFRLILSESDKD 130
>ref|NP_224202.1| abc transporter, ATP-binding protein [Helicobacter pylori J99]
Length = 327
Score = 23.1 bits (48), Expect = 3.8
Identities = 9/22 (40%), Positives = 14/22 (62%)
Query: 62 ETLEYQKLFENKVESLKGVKIE 83
E +K++EN +LKGV +E
Sbjct: 4 ELKNIEKIYENGFHALKGVNLE 25
>ref|NP_223965.1| putative [Helicobacter pylori J99]
Length = 412
Score = 23.1 bits (48), Expect = 3.8
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 68 KLFENKVESLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEE 127
KL E K + K E+E+AK + + ++ QK+LE+ NE+++
Sbjct: 306 KLVEQKKKESLAFK-SEVENAKNKTRHLALKLLKKLETLQKNLESINKIIKQNEKIAQIY 364
Query: 128 ALNKEVSSD 136
AL+ + + D
Sbjct: 365 ALDLKTNGD 373
>ref|NP_223688.1| putative PARALOG OF HpaA [Helicobacter pylori J99]
Length = 249
Score = 23.1 bits (48), Expect = 3.8
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 37 RAVKKTLNDAKDTLDKEINIEEIKKETLEYQKL 69
RA+KK +N A + I E KK Y+K+
Sbjct: 209 RAIKKIMNQAYHKVMAHITKELSKKHMERYEKV 241
>ref|NP_223638.1| putative [Helicobacter pylori J99]
Length = 93
Score = 23.1 bits (48), Expect = 3.8
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 101 DLMQDYQKSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQL 144
DLMQ+ QK L T + N +N KE+ P E QL
Sbjct: 12 DLMQNIQKRLGTEISNLYRNNSNNNASVTKKEMI---PPTEKQL 52
>ref|NP_223629.1| putative [Helicobacter pylori J99]
Length = 487
Score = 23.1 bits (48), Expect = 3.8
Identities = 31/152 (20%), Positives = 58/152 (37%), Gaps = 26/152 (17%)
Query: 25 FPQAVVDVVKFFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVE--------- 75
FP+ + + ++ L D D L N +I E +K +EN +
Sbjct: 169 FPKTTTPLEQSSLSLWAKLQDKLDILILNPNDVKISLNEEEMKKYYENHRKDFKKPTSFK 228
Query: 76 --------SLKGVKIEELEDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEE 127
SL+ ++ELE+ + + +QD++ E + + LN + +NE+
Sbjct: 229 TRSLYFDASLEKTDLKELEEYYHKNKVSYLDKEGKLQDFKSVQE--QVKHDLNMQKANEK 286
Query: 128 ALNKEVSSDESPKEVQLATDNNTKEHDKEKEN 159
AL ++ ++ N D EK N
Sbjct: 287 ALRSYIA-------LKKGNAQNYTTQDFEKNN 311
>ref|NP_222977.1| putative [Helicobacter pylori J99]
Length = 327
Score = 23.1 bits (48), Expect = 3.8
Identities = 36/138 (26%), Positives = 59/138 (42%), Gaps = 24/138 (17%)
Query: 35 FFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENK-----VES---LKGVKIEELE 86
+F A+ K AK+ L ++ E+IK+E +YQ N+ VES LK K +++
Sbjct: 78 YFSAMSK----AKEVLCEKQAFEQIKQENQDYQACEVNQKYCVYVESKDFLKDFKRFKIQ 133
Query: 87 DAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEV--------SNEEALNKEVSSDES 138
D + I D ++D +LE + L E E L K V +E
Sbjct: 134 DVDFLF-SPFSLIYDFVRD---NLENKPLLYLLLERSRFYFLIADKKEIFLAKSVFLEEQ 189
Query: 139 PKEVQLATDNNTKEHDKE 156
P+E + + ++ D E
Sbjct: 190 PEEFIESKEEDSMGMDNE 207
>ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANINE AMIDASE [Helicobacter
pylori J99]
Length = 469
Score = 22.7 bits (47), Expect = 5.0
Identities = 14/53 (26%), Positives = 24/53 (44%), Gaps = 3/53 (5%)
Query: 107 QKSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNNTKEHDKEKEN 159
+K + IP +E+ +E KE+ E PK+ + KE + E +N
Sbjct: 177 KKEIPKKEIPK---KEIPKKEIPKKEIPKKEIPKKEIPKKEIPKKEAENESKN 226
>ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPORT PROTEIN [Helicobacter
pylori J99]
Length = 317
Score = 22.7 bits (47), Expect = 5.0
Identities = 12/43 (27%), Positives = 24/43 (54%)
Query: 41 KTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIE 83
K L + +K++ E+ +++ + QK+ + K+E K VK E
Sbjct: 133 KALKKVEKVEEKKVVEEKKEEKKVVEQKVEQKKIEEKKPVKKE 175
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 22.7 bits (47), Expect = 5.0
Identities = 22/124 (17%), Positives = 48/124 (37%), Gaps = 8/124 (6%)
Query: 40 KKTLNDAKDTLDKEI-----NIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAEN 94
KK D+ L E + E++ KE+ E +N +++ K ED +
Sbjct: 12 KKAQQDSPQDLSNEEATEANHFEDLLKESTESS---DNHLDNPTETKTHFDEDKLEETQT 68
Query: 95 EIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNNTKEHD 154
++ S + + + + + V ++ ++ S DE +++ D EH
Sbjct: 69 QMDSGGNETSESSNGSLADKLFKKARKLVDDKRPFTQQKSLDEETQKLNEEDDQENNEHQ 128
Query: 155 KEKE 158
+E +
Sbjct: 129 EETQ 132
>ref|NP_223091.1| putative [Helicobacter pylori J99]
Length = 194
Score = 22.7 bits (47), Expect = 5.0
Identities = 16/49 (32%), Positives = 28/49 (56%), Gaps = 6/49 (12%)
Query: 59 IKKETLEYQKLFENKVESLKGVKIEELEDAK----VTAENEIKSIQDLM 103
I KE Q +F+NK+ SLK ++E L K +T ++I I++++
Sbjct: 148 ILKEVKSAQIVFQNKILSLK--EVERLLVNKNIKIITKNDDILDIKEVL 194
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 22.7 bits (47), Expect = 5.0
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 131 KEVSSDESPKEVQLATDNNTKEHDKEKEN 159
K+ + +P + Q NN KE + KEN
Sbjct: 172 KKEGFENTPSDSQKKETNNDKEKENLKEN 200
>ref|NP_222783.1| putative [Helicobacter pylori J99]
Length = 806
Score = 22.7 bits (47), Expect = 5.0
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 6/35 (17%)
Query: 82 IEELEDA--KVTAENE----IKSIQDLMQDYQKSL 110
+++L+DA KV A+ E +K I ++DYQKS+
Sbjct: 8 LQKLDDALDKVVAKKEPESFLKPIISPIEDYQKSV 42
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 22.3 bits (46), Expect = 6.6
Identities = 9/40 (22%), Positives = 20/40 (49%)
Query: 86 EDAKVTAENEIKSIQDLMQDYQKSLETNTIPNHLNEEVSN 125
++ K +N +S+ +L+Q + S+ T + +SN
Sbjct: 174 QEVKAQLQNTAQSMAELLQQIEHSITKTTSTTYAQSLLSN 213
>ref|NP_223205.1| cag island protein [Helicobacter pylori J99]
Length = 237
Score = 22.3 bits (46), Expect = 6.6
Identities = 14/42 (33%), Positives = 24/42 (56%), Gaps = 1/42 (2%)
Query: 48 DTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAK 89
++L + I+ IKK L + K+F N +E L ++ LE +K
Sbjct: 182 ESLKNKNFIKGIKKLMLAHNKVFLNYLEELDALE-RSLEQSK 222
>ref|NP_224044.1| putative [Helicobacter pylori J99]
Length = 792
Score = 21.9 bits (45), Expect = 8.6
Identities = 14/51 (27%), Positives = 24/51 (46%), Gaps = 4/51 (7%)
Query: 108 KSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQLATDNNTKEHDKEKE 158
K L + L +V + LN + SD++PK +Q K+ +K K+
Sbjct: 333 KDLASKNHLKMLENQVFQFDFLNDDFFSDKTPKSLQ----EILKDEEKRKK 379
>ref|NP_223760.1| putative [Helicobacter pylori J99]
Length = 127
Score = 21.9 bits (45), Expect = 8.6
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 34 KFFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFE 71
K F++ K D+ L+K++N+E E +KL E
Sbjct: 51 KDFQSAKSLKFDSVSELEKDLNMEVTNDEWDTIKKLNE 88
>ref|NP_223660.1| putative [Helicobacter pylori J99]
Length = 61
Score = 21.9 bits (45), Expect = 8.6
Identities = 11/40 (27%), Positives = 20/40 (49%)
Query: 35 FFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKV 74
FF +K +LN L K+ +++ K ++ KL E +
Sbjct: 5 FFFFLKISLNHVDRNLQKKEKVKKRKNSIIKRDKLTERAI 44
>ref|NP_223362.1| EXCINUCLEASE ABC SUBUNIT A. [Helicobacter pylori J99]
Length = 941
Score = 21.9 bits (45), Expect = 8.6
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 50 LDKEINIEEIKKETLE 65
LD+EI++ + KK T+E
Sbjct: 192 LDEEIHLHKTKKHTIE 207
>ref|NP_222751.1| ATP-DEPENDENT PROTEASE,ATP-BINDING SUBUNIT [Helicobacter pylori
J99]
Length = 742
Score = 21.9 bits (45), Expect = 8.6
Identities = 23/109 (21%), Positives = 46/109 (42%), Gaps = 6/109 (5%)
Query: 35 FFRAVKKTLNDAKDTLDKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDAKVTAEN 94
+F++ ++ D D +IN EE K T + ++L + D + E
Sbjct: 130 YFKSALLDFDNPNDINDNDINNEEAPKST-----PLKKYTKNLSALAQNNALDPVIGREE 184
Query: 95 EIKSIQDLMQDYQKSLETNTIPNHLNEEVSNEEALNKEVSSDESPKEVQ 143
EI + +++ +K+ I + S EAL +++ E P+ +Q
Sbjct: 185 EILRVIEILGRRKKN-NPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQ 232
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
0.309 0.130 0.333
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 179,912
Number of Sequences: 1491
Number of extensions: 8589
Number of successful extensions: 81
Number of sequences better than 10.0: 54
Number of HSP's better than 10.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 40
Number of HSP's gapped (non-prelim): 59
length of query: 160
length of database: 494,079
effective HSP length: 71
effective length of query: 89
effective length of database: 388,218
effective search space: 34551402
effective search space used: 34551402
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)