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|15645208|ref|NP_207378.1| hypothetical protein
[Helicobacter pylori 26695]
(293 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223248.1| putative [Helicobacter pylori J99] 508 e-146
ref|NP_224062.1| putative [Helicobacter pylori J99] 28 0.22
ref|NP_223951.1| 30S RIBOSOMAL PROTEIN S3 [Helicobacter pyl... 28 0.22
ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT ... 27 0.48
ref|NP_223444.1| putative TYPE I RESTRICTION ENZYME (SPECIF... 26 1.1
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 25 1.8
ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEAS... 25 2.4
ref|NP_223739.1| putative Outer membrane protein [Helicobac... 25 3.1
ref|NP_223433.1| putative [Helicobacter pylori J99] 25 3.1
ref|NP_224034.1| DNA transfer protein [Helicobacter pylori ... 24 4.1
ref|NP_224116.1| putative RIBOFLAVIN-SPECIFIC DEAMINASE [He... 24 5.4
ref|NP_223496.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS PRO... 24 5.4
ref|NP_223262.1| PENICILLIN-BINDING PROTEIN [Helicobacter p... 24 5.4
ref|NP_222756.1| DNA transformation competancy [Helicobacte... 24 5.4
ref|NP_222727.1| OROTIDINE 5'-PHOSPHATE DECARBOXYLASE [Heli... 24 5.4
ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter p... 23 7.0
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 23 7.0
ref|NP_224019.1| putative [Helicobacter pylori J99] 23 7.0
ref|NP_223714.1| putative [Helicobacter pylori J99] 23 7.0
ref|NP_223574.1| putative vacuolating cytotoxin (VacA) para... 23 7.0
ref|NP_223299.1| putative Outer membrane protein [Helicobac... 23 7.0
ref|NP_224012.1| PREPHENATE DEHYDROGENASE [Helicobacter pyl... 23 9.1
ref|NP_223429.1| TYROSYL-TRNA SYNTHETASE [Helicobacter pylo... 23 9.1
ref|NP_222895.1| putative [Helicobacter pylori J99] 23 9.1
>ref|NP_223248.1| putative [Helicobacter pylori J99]
Length = 293
Score = 508 bits (1309), Expect = e-146
Identities = 263/293 (89%), Positives = 273/293 (92%)
Query: 1 MRLLFLLLSAAFMLLAEEKISLNDDAPIKLVHWQNALKEVQPDSNAPATPPIKAVQTTLT 60
MRLLFLLLSA MLLAEEKI L+DDAPIKLVHWQNALKEVQPDSNAPATPPIKAVQTTLT
Sbjct: 1 MRLLFLLLSATLMLLAEEKIPLSDDAPIKLVHWQNALKEVQPDSNAPATPPIKAVQTTLT 60
Query: 61 FETPFNKTPKIMEVEGQKVIVLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAK 120
FETPFNKTPKIMEVEGQKVIVLKNA+LDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAK
Sbjct: 61 FETPFNKTPKIMEVEGQKVIVLKNAQLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAK 120
Query: 121 VELEIQASNSKDKKRLRFLFLPKGFHLAPPPNLKEKSQQTNLAQKDTNEQPQSPLNTLEL 180
LEIQAS+SKDKK+LRFLFLPKGFHLAPPP+LKEKSQ NLA +D E+ +SP N LEL
Sbjct: 121 AGLEIQASSSKDKKQLRFLFLPKGFHLAPPPSLKEKSQHANLASQDEKERAKSPSNALEL 180
Query: 181 KPPLNLSHAYKALAVIAALLLILYVIKKKIVPTQGSFSAKDFKLEISVLGRVDANHKIIS 240
KPPL+LSHAYK LAVIA LLLILYVIKKKIVPT GSF KD KL+ISVLGRVDANHKIIS
Sbjct: 181 KPPLDLSHAYKGLAVIAVLLLILYVIKKKIVPTPGSFLKKDLKLDISVLGRVDANHKIIS 240
Query: 241 IETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAENNIKNSKLGNLYAGKF 293
IETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAEN IKNSKLGNLYAGKF
Sbjct: 241 IETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAENKIKNSKLGNLYAGKF 293
>ref|NP_224062.1| putative [Helicobacter pylori J99]
Length = 258
Score = 28.5 bits (62), Expect = 0.22
Identities = 19/82 (23%), Positives = 37/82 (44%), Gaps = 3/82 (3%)
Query: 34 QNALKEVQPDSNAPATPPIKAVQTTLTFETPFNKTPKIMEVEGQKVIVLKNAKLDSKKTM 93
+ ++KE+ ++ + IK Q + P KTPK G K+ +K D +
Sbjct: 65 EESVKEIHQNAEEKQSLGIKTPQEEIITPKPPKKTPKEESHNGDKLHEIKQELKDLFSHL 124
Query: 94 DFKEASLNALEMFSYQNDIYLL 115
+K +N +E+ Y+ + L+
Sbjct: 125 PYK---INKVEVSLYEPGVLLI 143
>ref|NP_223951.1| 30S RIBOSOMAL PROTEIN S3 [Helicobacter pylori J99]
Length = 234
Score = 28.5 bits (62), Expect = 0.22
Identities = 29/146 (19%), Positives = 63/146 (42%), Gaps = 5/146 (3%)
Query: 76 GQKVIVLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAKVELEIQASNSKDKKR 135
G+K + ++ K + KT+ KE S+N E+ Q D L ++ +LE + + + K+
Sbjct: 78 GKKGVDIEKVK-EGLKTLIKKEVSINIKEVKRPQADAQLAAENVATQLEKRVAFRRAMKK 136
Query: 136 LRFLFLPKGFHLAPPPNLKEKSQQTNLAQKDTNEQPQSPLNTLELKPPLNLSHAYKALAV 195
+ L G + + +A+ + + + PL+TL K + A +
Sbjct: 137 VMQAALKSGAK-GIKVRVSGRLAGAEIARTEWYMEGRVPLHTLRAKIDYGFAEAMTVYGI 195
Query: 196 IAALLLILYVIKKKIVPTQGSFSAKD 221
I + +++ K +++ F K+
Sbjct: 196 IG---VKVWIFKGEVLQKGIQFEKKE 218
>ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 27.3 bits (59), Expect = 0.48
Identities = 23/64 (35%), Positives = 31/64 (47%), Gaps = 8/64 (12%)
Query: 78 KVIVLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYL---LSKKAKV--ELEIQASNSKD 132
K+I+L KL S+K + KE N LE Y DI L L++ V E+ + D
Sbjct: 262 KIILLAGKKLTSRKIKELKE---NHLEWVEYPMDILLNRHLAEPVMVGKEVLLDMLTQLD 318
Query: 133 KKRL 136
K RL
Sbjct: 319 KNRL 322
>ref|NP_223444.1| putative TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT)
[Helicobacter pylori J99]
Length = 454
Score = 26.2 bits (56), Expect = 1.1
Identities = 42/176 (23%), Positives = 74/176 (41%), Gaps = 6/176 (3%)
Query: 110 NDIYLLSKKAKVELEIQASNSKDKKRLRFLFLPKGFHLAPPPNLKEKSQQTNLAQKDTNE 169
NDI K AK L Q K K+L PKG ++ E ++ L + D +
Sbjct: 216 NDINQSRKDAKERLA-QKPYPKRLKQLLHTLAPKGVEFRKLGDIGEFTRGNGLLKSDLQD 274
Query: 170 QPQSPLNTLELKPPLNLSHAYKALAVIAALLLILYVIK-KKIVPTQGSFSAKDFKLEISV 228
+ + ++ ++ NLS V AL L K I+ S + KD I+
Sbjct: 275 KGRPVVHYGQIHTQYNLSIDKTISYVNDALFHKLKKAKPNDILIATTSENVKDVGKSIAW 334
Query: 229 LG--RVDANHKIISIETNKE-RYLVLLSDKYGLLLDKISPKTSKEELIKEAENNIK 281
LG V + ++ S TN+ ++++ Y +K K + ++++ EN++K
Sbjct: 335 LGNEEVAFSGEMYSYSTNENPKFIIYYFQTYFFQKEK-EKKITGTKVMRIHENDLK 389
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 25.4 bits (54), Expect = 1.8
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 10/50 (20%)
Query: 65 FNKTPKIMEVEGQKVIVLKNAKLDSKKTMDFKE--------ASLNALEMF 106
F+KTP +E++G ++ +L N KL+ K K+ ASL LE F
Sbjct: 359 FDKTP--LELKGHEIKLLDNKKLEIYKNSVLKKHENYQKDKASLPLLEYF 406
>ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEASING FACTOR) (RRF)
[Helicobacter pylori J99]
Length = 185
Score = 25.0 bits (53), Expect = 2.4
Identities = 16/54 (29%), Positives = 30/54 (54%), Gaps = 6/54 (11%)
Query: 231 RVDANHKIISIETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAENNIKNSK 284
R DAN+K+ +E +KE + D+ ++I T +E IK+ + ++KN +
Sbjct: 132 RQDANNKVKKLEKDKE----ISEDESKKAQEQIQKIT--DEAIKKIDESVKNKE 179
>ref|NP_223739.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 511
Score = 24.6 bits (52), Expect = 3.1
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 9/81 (11%)
Query: 184 LNLSHAYKALAVIAALLLILYVIKKKIVPTQGSFSAKDFKLEISVLGRVDANHKIISIET 243
+ L AY L +I I+KKI P + S K FKL + L +
Sbjct: 14 IGLLTAYLILFTEWGNKIIASYIEKKINPNERYLSVKTFKLRFNSLD--------FKAQA 65
Query: 244 NKERYLVLLSDKYGLLLDKIS 264
N + L+L D + LL ++
Sbjct: 66 NDDSTLILKGD-FSLLTQSVN 85
>ref|NP_223433.1| putative [Helicobacter pylori J99]
Length = 227
Score = 24.6 bits (52), Expect = 3.1
Identities = 39/142 (27%), Positives = 52/142 (36%), Gaps = 32/142 (22%)
Query: 81 VLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAKVELEIQASNSK--------- 131
VL ++ + D + AS NAL L+ KA L+ SN K
Sbjct: 78 VLSVLVVNRENAFDKESASSNALSKVLGLKGEVLIGNKA---LQFYYSNPKKDFIDLAAL 134
Query: 132 --DKKRLRFLF----------LPKGFHLA--------PPPNLKEKSQQTNLAQKDTNEQP 171
+KKRL F+F K LA P LKE + +TNL ++D
Sbjct: 135 WYEKKRLPFVFGRLCYYQNKDFYKRLSLAFKHQKTKIPHYILKEAALKTNLKRQDILNYL 194
Query: 172 QSPLNTLELKPPLNLSHAYKAL 193
Q TL K L Y+ L
Sbjct: 195 QKIYYTLGKKEQSGLKAFYREL 216
>ref|NP_224034.1| DNA transfer protein [Helicobacter pylori J99]
Length = 304
Score = 24.3 bits (51), Expect = 4.1
Identities = 14/48 (29%), Positives = 27/48 (56%)
Query: 215 GSFSAKDFKLEISVLGRVDANHKIISIETNKERYLVLLSDKYGLLLDK 262
G S+ L ++L V+ + +++S+E ++E L S+ GLL+ K
Sbjct: 145 GETSSGKTSLLNALLDCVNKDERVVSVEDSQELDLKAFSNCVGLLVGK 192
>ref|NP_224116.1| putative RIBOFLAVIN-SPECIFIC DEAMINASE [Helicobacter pylori J99]
Length = 344
Score = 23.9 bits (50), Expect = 5.4
Identities = 8/15 (53%), Positives = 14/15 (93%)
Query: 232 VDANHKIISIETNKE 246
+D NH+I+S+ET+K+
Sbjct: 33 LDKNHEILSLETHKK 47
>ref|NP_223496.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS PROTEIN [Helicobacter pylori
J99]
Length = 333
Score = 23.9 bits (50), Expect = 5.4
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 55 VQTTLTFETPFNKTPKIMEVEGQKV 79
+Q T++F+TP + T + +GQKV
Sbjct: 285 IQPTISFQTPKDYTLTKLHEKGQKV 309
>ref|NP_223262.1| PENICILLIN-BINDING PROTEIN [Helicobacter pylori J99]
Length = 660
Score = 23.9 bits (50), Expect = 5.4
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 93 MDFKEASLNALEMFSYQNDIYLLSKKAKVELEIQASNSKDKKRL 136
+D++ +L +L F +Q +L K AK + + ASN KD+ L
Sbjct: 290 LDYQRLALESLR-FGHQK---ILEKIAKEKPKTNASNDKDEDNL 329
>ref|NP_222756.1| DNA transformation competancy [Helicobacter pylori J99]
Length = 247
Score = 23.9 bits (50), Expect = 5.4
Identities = 15/61 (24%), Positives = 30/61 (48%), Gaps = 3/61 (4%)
Query: 154 KEKSQQTNLAQKDTNEQPQSPLNTLELKPPLNLSHAYKALAVIAALLLILYVIKKKIVPT 213
+EK ++ L+ N+ + LE L AY+ L +++ + L+L ++ I+P
Sbjct: 21 QEKHLESKLSGFSVNDLDMQSVFRLERN---RLKIAYRLLGLMSFIALVLAIVLISILPL 77
Query: 214 Q 214
Q
Sbjct: 78 Q 78
>ref|NP_222727.1| OROTIDINE 5'-PHOSPHATE DECARBOXYLASE [Helicobacter pylori J99]
Length = 227
Score = 23.9 bits (50), Expect = 5.4
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 83 KNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAKVELEI 125
KN K D ++ + KEA N + IY + +V LE+
Sbjct: 181 KNDKEDQERVANAKEAKQNLSDFIVVGRPIYQAKEPREVVLEL 223
>ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 326
Score = 23.5 bits (49), Expect = 7.0
Identities = 12/46 (26%), Positives = 24/46 (52%)
Query: 239 ISIETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAENNIKNSK 284
+ ETNKER ++ ++ DK ++ KE+ + ++ +K K
Sbjct: 181 VFFETNKERLILKTLNEENKQNDKKLKRSIKEKALYFEKHGVKKEK 226
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 23.5 bits (49), Expect = 7.0
Identities = 32/115 (27%), Positives = 48/115 (40%), Gaps = 20/115 (17%)
Query: 27 PIKLVH-WQNALKEVQPDSNAPATPPIKAVQTTLTFETPFNKTPKIMEVEGQKVIVLKNA 85
P KL QNA+KE+Q D +P A + + + KT M + V+ N
Sbjct: 229 PFKLTRDQQNAIKEIQSDLTSPI-----ACKRLIIGDVGCGKT---MVILASMVLAYPN- 279
Query: 86 KLDSKKTMDFKEASLNALEMFSYQNDIYLLSKKAKVELEIQASNSKDKKRLRFLF 140
KT+ S+ A ++ Y + L +VEL + S+ KKR LF
Sbjct: 280 -----KTLLMAPTSILAKQL--YHEALKFLPPYFEVELLLGGSH---KKRSNHLF 324
>ref|NP_224019.1| putative [Helicobacter pylori J99]
Length = 314
Score = 23.5 bits (49), Expect = 7.0
Identities = 14/53 (26%), Positives = 26/53 (48%)
Query: 118 KAKVELEIQASNSKDKKRLRFLFLPKGFHLAPPPNLKEKSQQTNLAQKDTNEQ 170
KA +E I + K+K+RL+FL + LK + N+ + + N++
Sbjct: 105 KAFIEESIYDRHDKEKERLKFLTAQNYNSIFENTVLKNLEFEDNIKKSEWNKK 157
>ref|NP_223714.1| putative [Helicobacter pylori J99]
Length = 248
Score = 23.5 bits (49), Expect = 7.0
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 252 LSDKYGLLLDKISPKTSKEELIKEAENNIKNSK 284
+ +K L I P +KEE +K+ EN K+ K
Sbjct: 208 MEEKDSLTHYLIGPYKTKEEALKQLENAAKSFK 240
>ref|NP_223574.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2399
Score = 23.5 bits (49), Expect = 7.0
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 5/62 (8%)
Query: 51 PIKAVQTTLTFETPFNKTPKIMEVEGQKVIVLKNAKLDSKKTMDFKEASLNALEMFSYQN 110
P+K + T + E PFNK + K VL L + E + +SYQ+
Sbjct: 39 PLKRHKKTKSIEKPFNKNKSFL-----KASVLLIGALGGLSHLRANECRYWSWSSWSYQD 93
Query: 111 DI 112
+I
Sbjct: 94 NI 95
>ref|NP_223299.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 307
Score = 23.5 bits (49), Expect = 7.0
Identities = 12/28 (42%), Positives = 14/28 (49%)
Query: 263 ISPKTSKEELIKEAENNIKNSKLGNLYA 290
I K S E + +A NN KNS N A
Sbjct: 42 IGEKASAENALNQAINNAKNSLFPNTKA 69
>ref|NP_224012.1| PREPHENATE DEHYDROGENASE [Helicobacter pylori J99]
Length = 275
Score = 23.1 bits (48), Expect = 9.1
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 51 PIKAVQTTLTFETPFNKTPKIMEVEGQKVIVLKN 84
P++ + L TP K+ I+++ G K +L N
Sbjct: 67 PVEGIIECLKKMTPIKKSATIIDLGGAKAQILHN 100
>ref|NP_223429.1| TYROSYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 402
Score = 23.1 bits (48), Expect = 9.1
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 10/49 (20%)
Query: 237 KIISIETNKE-RYLVLLSDK---------YGLLLDKISPKTSKEELIKE 275
KI+S+ + RY LLS K +G+L + PK KE+L E
Sbjct: 253 KIMSVSDDLMWRYYTLLSAKTLEEIEDLKHGILHQTLHPKAVKEDLASE 301
>ref|NP_222895.1| putative [Helicobacter pylori J99]
Length = 567
Score = 23.1 bits (48), Expect = 9.1
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 122 ELEIQASNSKDKKRLRFLFLPKGFHLAPPPNLKEKSQQTNLAQKD 166
E+EIQ +D+K LR G ++ L K + +L +KD
Sbjct: 477 EIEIQKLGFEDRKDLRAYIYTYGNLISLEKPLNIKGKDKDLYEKD 521
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
0.314 0.132 0.356
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 312,524
Number of Sequences: 1491
Number of extensions: 14924
Number of successful extensions: 71
Number of sequences better than 10.0: 24
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 57
Number of HSP's gapped (non-prelim): 24
length of query: 293
length of database: 494,079
effective HSP length: 77
effective length of query: 216
effective length of database: 379,272
effective search space: 81922752
effective search space used: 81922752
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)