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|15644815|ref|NP_206985.1| hypothetical protein
[Helicobacter pylori 26695]
(404 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222895.1| putative [Helicobacter pylori J99] 673 0.0
ref|NP_224019.1| putative [Helicobacter pylori J99] 29 0.25
ref|NP_223904.1| putative NADH oxidoreductase I [Helicobact... 28 0.32
ref|NP_223625.1| putative [Helicobacter pylori J99] 28 0.32
ref|NP_223939.1| 50S RIBOSOMAL PROTEIN L15 [Helicobacter py... 27 0.72
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 27 0.72
ref|NP_224020.1| putative [Helicobacter pylori J99] 27 0.94
ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobact... 27 0.94
ref|NP_224148.1| putative [Helicobacter pylori J99] 27 1.2
ref|NP_223534.1| putative [Helicobacter pylori J99] 27 1.2
ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (... 26 1.6
ref|NP_224005.1| ROD SHAPE-DETERMINING PROTEIN [Helicobacte... 26 1.6
ref|NP_223961.1| RIBONUCLEASE HII [Helicobacter pylori J99] 26 1.6
ref|NP_224061.1| putative Inner membrane protein [Helicobac... 26 2.1
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 26 2.1
ref|NP_223685.1| CYCLOPOCYCLOPROPANE FATTY ACID SYNTHASE [H... 25 2.7
ref|NP_222827.1| putative [Helicobacter pylori J99] 25 2.7
ref|NP_222808.1| putative [Helicobacter pylori J99] 25 2.7
ref|NP_223797.1| VALYL-TRNA SYNTHETASE [Helicobacter pylori... 25 3.6
ref|NP_223386.1| putative [Helicobacter pylori J99] 25 3.6
ref|NP_223203.1| cag island protein [Helicobacter pylori J99] 25 3.6
ref|NP_222763.1| putative TRANSCRIPTIONAL REGULATOR [Helico... 25 3.6
ref|NP_223308.1| LYTIC MUREIN TRANSGLYCOSYLASE [Helicobacte... 25 4.6
ref|NP_222850.1| L-lactate permease [Helicobacter pylori J99] 25 4.6
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 25 4.6
ref|NP_224188.1| putative [Helicobacter pylori J99] 24 6.1
ref|NP_223689.1| GMP SYNTHETASE [Helicobacter pylori J99] 24 6.1
ref|NP_223180.1| putative [Helicobacter pylori J99] 24 6.1
ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 24 6.1
ref|NP_224013.1| putative ENDONUCLEASE [Helicobacter pylori... 24 7.9
ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT ... 24 7.9
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 24 7.9
>ref|NP_222895.1| putative [Helicobacter pylori J99]
Length = 567
Score = 673 bits (1736), Expect = 0.0
Identities = 344/407 (84%), Positives = 365/407 (89%), Gaps = 3/407 (0%)
Query: 1 MSEEEVNERLEVLLEMVLMRFEEPDPGRAIRTFQSVNDRGVPLLLLDKLKSLLIYYSNIF 60
+SEEEVNERLEVLL+MVLMR EEPDPG+AIRTFQSVNDRGVPLLLLDKLKSLLIYYSN F
Sbjct: 161 LSEEEVNERLEVLLKMVLMRLEEPDPGKAIRTFQSVNDRGVPLLLLDKLKSLLIYYSNTF 220
Query: 61 CDGKRGLDQFIIDHFGEIFKIFAKIKKSDHISSVGG--FDEGDIFRYHAGSQKFDGIEFL 118
CDGKRGLDQFIIDHFGEIFKIFAKIKKS+HISSVGG F+EGDIFRYHAGSQ+FDGIEFL
Sbjct: 221 CDGKRGLDQFIIDHFGEIFKIFAKIKKSNHISSVGGPEFNEGDIFRYHAGSQRFDGIEFL 280
Query: 119 GHYEASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFKV 178
GHY STD TYEKLK ELK+IKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTT KV
Sbjct: 281 GHYRTSTDNTYEKLKAELKEIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTLKV 340
Query: 179 MLINKIDSSFFNSLIRLKINNELDDETLKLFAKTDIVLFKATRD-RPGTDNLINAYLKKG 237
MLIN+I+ FFNSLIRLKINNELDDETLKLFAKTDIV FK+TR + NLINAYL+KG
Sbjct: 341 MLINRINPLFFNSLIRLKINNELDDETLKLFAKTDIVCFKSTRYMQSAAYNLINAYLRKG 400
Query: 238 KEGLKSEMIAQCRNDIGLAFWQSVNNASNSSCFHYIFFEKNCQEMGLADLKKLIPRKQFS 297
KEGLKS MIAQCRNDI LAF QSVN A NSSCFHYIFFEKNCQEMGLADLKKLIP KQFS
Sbjct: 401 KEGLKSGMIAQCRNDIELAFRQSVNEAFNSSCFHYIFFEKNCQEMGLADLKKLIPGKQFS 460
Query: 298 QEKEHIIPINLLKQESNNKIRDLGFEDKKDLEDYIDTYGNLISLEKSLNRKASDKDLYGK 357
QEKEHIIPINLL ++ +I+ LGFED+KDL YI TYGNLISLEK LN K DKDLY K
Sbjct: 461 QEKEHIIPINLLDLDNEIEIQKLGFEDRKDLRAYIYTYGNLISLEKPLNIKGKDKDLYEK 520
Query: 358 DEIYKSSEIPFNRRFDTKNFNKKALVKRNEEMREWLIDTFFKDFAAH 404
DEIYKSSEIPFNRRF+ K FNKK L+ RN+EM+EWLIDTFFKDFA H
Sbjct: 521 DEIYKSSEIPFNRRFNVKGFNKKVLITRNDEMQEWLIDTFFKDFATH 567
>ref|NP_224019.1| putative [Helicobacter pylori J99]
Length = 314
Score = 28.9 bits (63), Expect = 0.25
Identities = 14/26 (53%), Positives = 19/26 (72%)
Query: 29 AIRTFQSVNDRGVPLLLLDKLKSLLI 54
A++ FQ +NDRG PL +D LKS L+
Sbjct: 210 AMQIFQVLNDRGQPLSPIDILKSSLM 235
>ref|NP_223904.1| putative NADH oxidoreductase I [Helicobacter pylori J99]
Length = 328
Score = 28.5 bits (62), Expect = 0.32
Identities = 49/213 (23%), Positives = 89/213 (41%), Gaps = 31/213 (14%)
Query: 196 KINNELDDETLKLFAKTDI-VLFKATRDRPGTDNLINAYLKKGKEGLKSEMIAQCRNDIG 254
KIN +L +++L L K+D+ VLF NA L + + + E I Q +
Sbjct: 35 KINYKLSEDSLNLLEKSDLCVLF---------GGFSNACLNENERWI-LESINQSKRPYA 84
Query: 255 LAFWQSVNNASNSSCFHYIFFEKNCQEMGLADLKKLIPRKQFSQEKEHI---IPINLLKQ 311
L +C + +E + + LA + + I +Q SQ K H+ I + L
Sbjct: 85 LLRPLQDTRDLQENCL-FASYEIHTEAAILALILRGI-LEQTSQLKGHVLEKIDVGYLSS 142
Query: 312 ESNNKIRDLGFEDKKDLEDYIDTYGNLISLEKSLNRKASDKDLY----GKDEIYKSSEIP 367
E+N +L ++ + + ++ L + + + A++ LY G + IP
Sbjct: 143 EANMSEEEL----QELIALIVKAKKRVLVLNREITKHANNAFLYTLLSGLQNYLEILHIP 198
Query: 368 FNRRFDTKNFNKKALVKRNEEMREWLIDTFFKD 400
N T F + + +EWL++T FK+
Sbjct: 199 CNDSNPTVAF-------YDSKDQEWLLETAFKE 224
>ref|NP_223625.1| putative [Helicobacter pylori J99]
Length = 362
Score = 28.5 bits (62), Expect = 0.32
Identities = 13/43 (30%), Positives = 26/43 (60%)
Query: 123 ASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDL 165
A +K YE+++D ++++K+SK+ S +L+ + LDL
Sbjct: 191 ADAEKYYEEIQDRIRRLKESKIFDSQSSNDQELQKSANSNLDL 233
>ref|NP_223939.1| 50S RIBOSOMAL PROTEIN L15 [Helicobacter pylori J99]
Length = 133
Score = 27.3 bits (59), Expect = 0.72
Identities = 13/51 (25%), Positives = 25/51 (48%)
Query: 281 EMGLADLKKLIPRKQFSQEKEHIIPINLLKQESNNKIRDLGFEDKKDLEDY 331
E G L++ +P+ F + HI IN+ K E+ + ++ F + L +
Sbjct: 51 EGGQQPLQRRLPKIGFRTKDSHIYSINVEKNEAIKSLEEITFSSLRALHHF 101
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 27.3 bits (59), Expect = 0.72
Identities = 34/135 (25%), Positives = 51/135 (37%), Gaps = 26/135 (19%)
Query: 161 AFLDLLSEIDTNPTTFKVMLINKIDSSFFNSLIRLKINNELDDETLKLFAKTDI-VLFKA 219
A L LL EI +N TT + SF +L +L L D+T + + I + A
Sbjct: 982 AILTLLQEITSNTTTIQ---------SFSQTLRQL-----LGDKTFFMVQQKLIDAMINA 1027
Query: 220 TRDRPGTDNLINAYLKKGKEGLKSEMIAQCRND--------IGLAFWQSVNNASNSSCFH 271
N N Y G + + S+ A +G+ + A H
Sbjct: 1028 RNQVQNAQNQANNY---GSQPVLSQYAAAKSTQHGMSNGLGVGIGYKYFFGKARKLGLRH 1084
Query: 272 YIFFEKNCQEMGLAD 286
Y FF+ E+GLA+
Sbjct: 1085 YFFFDYGFSEIGLAN 1099
>ref|NP_224020.1| putative [Helicobacter pylori J99]
Length = 201
Score = 26.9 bits (58), Expect = 0.94
Identities = 20/77 (25%), Positives = 36/77 (45%), Gaps = 9/77 (11%)
Query: 324 DKKDLEDYIDTYGNLISLEKSLNRKASDKDLYGKDEIYKSS---------EIPFNRRFDT 374
DK+ E +++ NL L++ N KA + D K +IY +I D
Sbjct: 103 DKEKREKWVNHIANLTLLKRKKNAKALNGDFDEKRKIYGGKDPSKVISCYDITKELYSDY 162
Query: 375 KNFNKKALVKRNEEMRE 391
+ +++K+L KR + + E
Sbjct: 163 RKWDEKSLQKRYDFLYE 179
>ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobacter pylori J99]
Length = 414
Score = 26.9 bits (58), Expect = 0.94
Identities = 59/249 (23%), Positives = 94/249 (37%), Gaps = 45/249 (18%)
Query: 120 HYEASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFKVM 179
H+E S D YEK LK K F++ + + + + E+D M
Sbjct: 184 HHEFSKDFYYEKALKILKSFKNPPAIEFLEKEIEVIPELF------ILEVDNE------M 231
Query: 180 LINKIDSSFFNSLIRLKINNELDDETLKLFAKTDIVLFKATRDRPGTDNLINAYLK---- 235
++ D S+ I L+ N D + LK K L A R T I L
Sbjct: 232 IVRLNDESY--PTISLEENRFKDSDYLKEKLKEAKDLIDALNLRKATIYKIGLMLLEYQY 289
Query: 236 ---KGKEGLKSEMIAQCRNDIGLAFWQSVNNASNSSCFHYIFFEKNCQEMGLADLKKLIP 292
KGKE +++ D+ F SV+ S + Y+ E+ G+ +K
Sbjct: 290 DFFKGKELRPLKLL-----DLANEFNHSVSTISRAISNKYLACER-----GVFPIKHFFS 339
Query: 293 RKQFSQEKEHII----PINLLKQE------SNNKIRDLGFEDK---KDLEDYIDTYGNLI 339
+ E + + + L+K E S+ KI +L E+K K + I Y L+
Sbjct: 340 IALDNSETSNAVIKDYLLELIKNEDKKEPLSDAKILEL-IEEKFHLKMVRRTITKYRQLL 398
Query: 340 SLEKSLNRK 348
++ S RK
Sbjct: 399 NIASSSERK 407
>ref|NP_224148.1| putative [Helicobacter pylori J99]
Length = 282
Score = 26.6 bits (57), Expect = 1.2
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 15 EMVLMRFEEPDPGRAIRTFQSVNDRGVPLLLLDKLKSLLI 54
++V ++ P+ A+R F +N RG+PL +D K L+
Sbjct: 194 KVVFIKTTCPNVSMALRIFSVLNARGLPLHAIDVFKVELL 233
>ref|NP_223534.1| putative [Helicobacter pylori J99]
Length = 614
Score = 26.6 bits (57), Expect = 1.2
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 91 ISSVGGFDEGDIFRYHAGSQKFDGIEFLGHYEASTDKTYEKLKDELKKIKKSKLK 145
I++ F + +I YH K + + + S D YE K +KK+ KS +K
Sbjct: 561 ITTKNPFKQENIVIYHRNYPKVSNLSAMLSHNESVDVIYEDHK--IKKVPKSAIK 613
Score = 25.8 bits (55), Expect = 2.1
Identities = 26/113 (23%), Positives = 53/113 (46%), Gaps = 11/113 (9%)
Query: 118 LGHYEASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFK 177
L H + EKLK+ ++IK+S ++ +K+ Y F+ L + +
Sbjct: 483 LNHLVKNNQVIMEKLKNATEEIKRSLMQQ------ESVKDAYSEFVFALKRLKI--LKAQ 534
Query: 178 VMLINKIDSSFFNSLIRLKINNELDDETLK-LFAKTDIVLFKATRDRPGTDNL 229
++ + KI++ + LI ++ + + T K F + +IV++ R+ P NL
Sbjct: 535 MLELQKINNECYAKLISIENSFQHASITTKNPFKQENIVIYH--RNYPKVSNL 585
Score = 23.9 bits (50), Expect = 7.9
Identities = 17/49 (34%), Positives = 27/49 (54%), Gaps = 6/49 (12%)
Query: 101 DIFRYHAGSQKFDGIEFLGHYEASTDKTYEKLKDELKKI-KKSKLKSFI 148
++F Y F+G+ F H+ + YE LK EL+K K+++ K FI
Sbjct: 125 EMFAYIKERLAFEGVVFR-HFS----QMYENLKTELRKYQKEAQNKRFI 168
>ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 678
Score = 26.2 bits (56), Expect = 1.6
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 129 YEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLD 164
Y+ LKD+L K+ K+KL +++ S KN + L+
Sbjct: 77 YKGLKDKLVKLDKNKLVENFKNHESHYKNIREYALN 112
>ref|NP_224005.1| ROD SHAPE-DETERMINING PROTEIN [Helicobacter pylori J99]
Length = 347
Score = 26.2 bits (56), Expect = 1.6
Identities = 22/92 (23%), Positives = 44/92 (46%), Gaps = 6/92 (6%)
Query: 67 LDQFIIDHFGEIFKIFAKIKKSDHISSVGGFD---EGDIFRYHAGSQKFDGIEFLGHYEA 123
LDQ I+++ + F + + + I G + + +G + G+ L E
Sbjct: 195 LDQSIVEYIRKKFNLLIGERTGEEIKIEIGCAIKLDPPLTMEVSGRDQVSGL--LHTIEL 252
Query: 124 STDKTYEKLKDELKKIKKSKLKSFIQSYVSDL 155
S+D +E +KD++++I S L+S ++ DL
Sbjct: 253 SSDDVFEAIKDQVREI-SSALRSVLEEVKPDL 283
>ref|NP_223961.1| RIBONUCLEASE HII [Helicobacter pylori J99]
Length = 209
Score = 26.2 bits (56), Expect = 1.6
Identities = 18/44 (40%), Positives = 25/44 (55%), Gaps = 3/44 (6%)
Query: 281 EMGLADLKKLIPRKQFSQE---KEHIIPINLLKQESNNKIRDLG 321
+MGL D KKL P+K+F E K H + ++S N+I LG
Sbjct: 39 KMGLKDSKKLSPKKRFFLEDKIKTHGEVGFFVVKKSANEIDHLG 82
>ref|NP_224061.1| putative Inner membrane protein [Helicobacter pylori J99]
Length = 549
Score = 25.8 bits (55), Expect = 2.1
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 12/74 (16%)
Query: 113 DGIEFLGHYEASTDKTYEKLKD----ELKKIKKSKLKSFIQSYVSDL-----KNFYQAFL 163
D F G +TDK EK++D E+K+ + S + Y + L ++A +
Sbjct: 226 DSYTFSGVLLENTDKKIEKIEDKDAKEIKRFSNTLFLSSVDRYFTTLLFTKDPQGFEALI 285
Query: 164 DLLSEIDT-NPTTF 176
D SEI T NP F
Sbjct: 286 D--SEIGTKNPLGF 297
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 25.8 bits (55), Expect = 2.1
Identities = 37/141 (26%), Positives = 57/141 (40%), Gaps = 21/141 (14%)
Query: 72 IDHFGEIFKIFAKIKKSDHISSVGGFDEGDIFRYHAGSQKFDGI-EFLGHYEASTDKTYE 130
ID G F + + K D +S VG + R +QK D + + + +AS ++
Sbjct: 956 IDDLGGPFPL-KRHDKVDDLSKVG------LSREQKLTQKIDNLNQAVSEAKASH---FD 1005
Query: 131 KLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFKVMLINKIDSSFFN 190
L + K+K S K+ + YV K + L TN T +I+S+ N
Sbjct: 1006 NLDQMIDKLKDSTKKNVVNLYVESAKKVPTSLSAKLDNYATNSHT-------RINSNVKN 1058
Query: 191 SLIRLKINNEL---DDETLKL 208
I K L + E LKL
Sbjct: 1059 GTINEKATGMLTQKNSEWLKL 1079
>ref|NP_223685.1| CYCLOPOCYCLOPROPANE FATTY ACID SYNTHASE [Helicobacter pylori J99]
Length = 389
Score = 25.4 bits (54), Expect = 2.7
Identities = 24/114 (21%), Positives = 44/114 (38%), Gaps = 16/114 (14%)
Query: 232 AYLKKGKEGLKSEMIAQCRNDIGLAFWQSVNNASNSSCFHYIFFEKNCQEMGLADLKKLI 291
AY KK + L + + + + + + + C K QE G + I
Sbjct: 133 AYFKKDDDTLHAAQLQKLDHTLKKLHLKQGEKLLDIGCGWGYLSIKAAQEYGAEVMGITI 192
Query: 292 PRKQFSQEKEHIIPINLLKQESNNKIRDLGFEDKKDLE--DYIDTYGNLISLEK 343
+Q+ Q +N ++++LG EDK ++ +Y D G L +K
Sbjct: 193 SSEQYKQ--------------ANKRVQELGLEDKVTIKLLNYQDLDGRLYRFDK 232
>ref|NP_222827.1| putative [Helicobacter pylori J99]
Length = 627
Score = 25.4 bits (54), Expect = 2.7
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 276 EKNCQEM-GLADLKKLIPRKQFSQEKEHIIPINLLKQESNNKIRDLGFEDKKDLEDYIDT 334
+K C+E+ A+ KK + F + E + + L ++ NK+ +L FE+ ++L ID
Sbjct: 491 KKKCEEIIKYANEKKTQVEEAFLKVAEFLEKVEKLHEK--NKLEELDFEELENLSAEIDN 548
Query: 335 YGNL 338
L
Sbjct: 549 VKEL 552
>ref|NP_222808.1| putative [Helicobacter pylori J99]
Length = 176
Score = 25.4 bits (54), Expect = 2.7
Identities = 18/54 (33%), Positives = 25/54 (45%), Gaps = 3/54 (5%)
Query: 123 ASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTF 176
A K E L+++LKKIK K+ SD+ Y L L++E N F
Sbjct: 47 ALASKASEDLEEQLKKIKDYIYKTLNAKIASDV---YDRVLILVNEYCANEELF 97
>ref|NP_223797.1| VALYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 872
Score = 25.0 bits (53), Expect = 3.6
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 84 KIKKSDHISSVGGFDEGDIFRYHAGSQKFDGIEFLGHYEASTDKTYEKLKDE--LKKIKK 141
++ K H+ ++ FDE I H G +F+ +E L + DK LK+ L+KI++
Sbjct: 287 EVGKRHHLETIKIFDEKGILNAHCG--EFENLERL----EARDKVVAALKENALLEKIEE 340
>ref|NP_223386.1| putative [Helicobacter pylori J99]
Length = 569
Score = 25.0 bits (53), Expect = 3.6
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 91 ISSVGGFDEGDIFRYHAGSQKFDGIEFLGHYEASTDKTYEKLKDELKKIKKSKLKSF 147
++ VGGF EG A + D + H E+S + + DE++ + L F
Sbjct: 59 VALVGGFSEGKTSIAAAWIDRLDKSMKIDHQESSDEVKIYHIDDEIELVDTPGLFGF 115
>ref|NP_223203.1| cag island protein [Helicobacter pylori J99]
Length = 376
Score = 25.0 bits (53), Expect = 3.6
Identities = 22/82 (26%), Positives = 34/82 (40%), Gaps = 14/82 (17%)
Query: 309 LKQESNNKIRDLGFEDKKDLEDYIDTYGNLISLEK--------SLNRKASD---KDLYGK 357
L +E N K L K+ +E+Y + NL+S ++ L R D KD+ K
Sbjct: 182 LDEEQNKKASRLALSYKQAIEEYSNNISNLLSRKELDNIDYYLQLERNKFDSKAKDIAQK 241
Query: 358 DE---IYKSSEIPFNRRFDTKN 376
I+ S + F+ D N
Sbjct: 242 ATNTLIFNSERLAFSMAIDKIN 263
>ref|NP_222763.1| putative TRANSCRIPTIONAL REGULATOR [Helicobacter pylori J99]
Length = 757
Score = 25.0 bits (53), Expect = 3.6
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 12/75 (16%)
Query: 121 YEASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFKVML 180
+EA + + E L + +I + I++ V LK FYQAF L ++
Sbjct: 624 FEAESGQVLENLALQSDEIAFYPFE--IKNSVVRLKEFYQAFEKDLGVLEP--------- 672
Query: 181 INKIDSSFFNSLIRL 195
+I FFNSL+ +
Sbjct: 673 -KRIAKKFFNSLVEI 686
>ref|NP_223308.1| LYTIC MUREIN TRANSGLYCOSYLASE [Helicobacter pylori J99]
Length = 560
Score = 24.6 bits (52), Expect = 4.6
Identities = 17/84 (20%), Positives = 35/84 (41%)
Query: 270 FHYIFFEKNCQEMGLADLKKLIPRKQFSQEKEHIIPINLLKQESNNKIRDLGFEDKKDLE 329
F++ F G L++ + + + K H P ++ ++ R GF +
Sbjct: 475 FNHPLFVAYAYNAGPGFLRRWLESSKRFKGKNHFEPWLSMELMPYSETRMYGFRVMLNYL 534
Query: 330 DYIDTYGNLISLEKSLNRKASDKD 353
Y + +GN I ++ L + + KD
Sbjct: 535 IYQEIFGNFIPIDAFLEQTLNSKD 558
>ref|NP_222850.1| L-lactate permease [Helicobacter pylori J99]
Length = 551
Score = 24.6 bits (52), Expect = 4.6
Identities = 14/43 (32%), Positives = 26/43 (59%), Gaps = 8/43 (18%)
Query: 173 PTTFKVMLINKIDSSFFNS------LIRLKINNELD--DETLK 207
P FK++LIN + +S F + ++R+++++ L ETLK
Sbjct: 358 PVVFKLLLINTVGTSIFLAALVSMLVLRVRVSDALSVFGETLK 400
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 24.6 bits (52), Expect = 4.6
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 13/60 (21%)
Query: 122 EASTDKTYEKLKDELKKIKKSKL----------KSFIQSYVSDLKNFYQ---AFLDLLSE 168
E D KLK+ L++IK+ KL KS ++ VS K F FLDL+ E
Sbjct: 415 EEGFDLAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQE 474
>ref|NP_224188.1| putative [Helicobacter pylori J99]
Length = 333
Score = 24.3 bits (51), Expect = 6.1
Identities = 30/141 (21%), Positives = 58/141 (40%), Gaps = 16/141 (11%)
Query: 136 LKKIKKSKLKSFIQS--YVSDLKNFYQAFL--------DLLSEIDTNPTTFKVMLINKID 185
LKK+ + +F+ + V K F +FL +++ +ID +V K+
Sbjct: 110 LKKLSPDLVVTFVGNPKAVEHAKKFGISFLSFQEKTIVEVMEDIDAQAKALEVDASKKLA 169
Query: 186 SSFFN-SLIRLKINNELDDETLKLFAKTDIV-----LFKATRDRPGTDNLINAYLKKGKE 239
I+ ++ N + ++LF K + + L ++ G DN Y+K G+
Sbjct: 170 KMQETLDFIKERLKNVKKKKGVELFHKANKISGHQALDSDILEKGGIDNFGLKYVKFGRA 229
Query: 240 GLKSEMIAQCRNDIGLAFWQS 260
+ E I + +I +W S
Sbjct: 230 DISVEKIVKENPEIIFIWWIS 250
>ref|NP_223689.1| GMP SYNTHETASE [Helicobacter pylori J99]
Length = 508
Score = 24.3 bits (51), Expect = 6.1
Identities = 14/44 (31%), Positives = 21/44 (46%), Gaps = 6/44 (13%)
Query: 18 LMRFEEPDPGRAIRTFQSVNDRGVPLL------LLDKLKSLLIY 55
LMR P PG AIR +N+ + L +++LK +Y
Sbjct: 381 LMRHPFPGPGLAIRILGEINENKIKRLQEADAIFIEELKKANLY 424
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 24.3 bits (51), Expect = 6.1
Identities = 14/51 (27%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 4 EEVNERLEVLLEMVLMRFEEPDPGRAIRTFQSVNDRGVPLLLLDKLKSLLI 54
E + + LE L+ + + +E D + I F+S+N +G+ L D +++ +I
Sbjct: 169 ETIFKGLEKLMIVYIALDKEKDDPQLI--FESMNSKGIELTQTDLIRNYII 217
>ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 455
Score = 24.3 bits (51), Expect = 6.1
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 46 LDKLKSLLIYYSNIFCDGKRGLDQFIIDHFGEIFKIFAKI-KKSDHISSV 94
L K++ L N+F D K I F EI+K+ + KS H+ +
Sbjct: 160 LSKIRDSLKLIQNMFWDEKNPNSVNIPQEFAEIYKLAKQSGMKSSHLDEI 209
>ref|NP_224013.1| putative ENDONUCLEASE [Helicobacter pylori J99]
Length = 287
Score = 23.9 bits (50), Expect = 7.9
Identities = 13/42 (30%), Positives = 17/42 (39%)
Query: 117 FLGHYEASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNF 158
F HY+ S +YE K E I K +Q D K +
Sbjct: 216 FWYHYDTSLTDSYENAKSECFYIPNDNQKYPLQEMRRDCKEY 257
>ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 23.9 bits (50), Expect = 7.9
Identities = 8/28 (28%), Positives = 17/28 (60%)
Query: 133 KDELKKIKKSKLKSFIQSYVSDLKNFYQ 160
K+E+ I + L S ++ Y +++N Y+
Sbjct: 1013 KEEIASINRFTLASLVKKYSKEVQNHYE 1040
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 23.9 bits (50), Expect = 7.9
Identities = 15/48 (31%), Positives = 25/48 (51%), Gaps = 3/48 (6%)
Query: 339 ISLEKSLNRKASDKDLYGKDEIYKSSEIPFNRRFDTKNFNKKALVKRN 386
+ LE +R + D++LY DEI E +NR +N K ++ +N
Sbjct: 254 VPLEDKSSRFSKDRNLYVNDEIQIRQE--YNRLLKERN-EKGNMIDKN 298
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
0.319 0.139 0.393
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 454,652
Number of Sequences: 1491
Number of extensions: 23314
Number of successful extensions: 124
Number of sequences better than 10.0: 32
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 102
Number of HSP's gapped (non-prelim): 39
length of query: 404
length of database: 494,079
effective HSP length: 80
effective length of query: 324
effective length of database: 374,799
effective search space: 121434876
effective search space used: 121434876
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)