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|15645896|ref|NP_208075.1| hypothetical protein
[Helicobacter pylori 26695]
(485 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222985.1| LIPOPOLYSACCHARIDE HEPTOSYLTRANSFERASE-1 [... 35 0.003
ref|NP_223134.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 27 1.5
ref|NP_222986.1| putative LIPID A BIOSYNTHESIS ACYLTRANSFER... 27 1.5
ref|NP_224135.1| CHROMOSOMAL REPLICATION INITIATOR PROTEIN ... 26 2.6
ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobac... 26 2.6
ref|NP_223589.1| proline/betaine transporter [Helicobacter ... 26 2.6
ref|NP_223586.1| putative [Helicobacter pylori J99] 25 3.4
ref|NP_222989.1| 3-DEHYDROQUINATE SYNTHASE [Helicobacter py... 25 4.4
ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter p... 25 5.8
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 25 5.8
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 25 5.8
ref|NP_223883.1| 30S RIBOSOMAL PROTEIN S18 [Helicobacter py... 25 5.8
ref|NP_223639.1| putative [Helicobacter pylori J99] 24 7.5
ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter ... 24 9.8
ref|NP_224063.1| putative thiophene/furan oxidation protein... 24 9.8
ref|NP_224002.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRA... 24 9.8
ref|NP_223890.1| putative Peptide ABC transporter, ATP-bind... 24 9.8
ref|NP_223778.1| ATP synthase F1, subunit gamma [Helicobact... 24 9.8
ref|NP_223174.1| putative Outer membrane protein [Helicobac... 24 9.8
>ref|NP_222985.1| LIPOPOLYSACCHARIDE HEPTOSYLTRANSFERASE-1 [Helicobacter pylori J99]
Length = 336
Score = 35.4 bits (80), Expect = 0.003
Identities = 71/326 (21%), Positives = 119/326 (35%), Gaps = 66/326 (20%)
Query: 84 LCFIRLDIIGDYILYRNFLPLFKKYFEDYETTFIGNATIKGIATHCDSQYIDKFIFLDNA 143
+ +RL +GD I+ FL K+ F D + + + I H S YIDK
Sbjct: 3 IAIVRLSALGDIIVSAVFLAAIKERFTDAQIEWFVDERFSAILEH--SPYIDKL------ 54
Query: 144 YWEKYLRIGVNGSRLSKLKELLFFLPKFMRKRYEDVSNLRKESYEICINSSMFYFSTKED 203
+ L F P + K ++ NLR Y+I I+ K
Sbjct: 55 ------------HPIPLKSALTTFNPLKIFKLFK---NLRAYEYDIIIDMQGL---IKSA 96
Query: 204 AIIKHLIAENKVGVFCTHPIESSFRTDYRKRGEIRKSFYTHLFYPKEVPQFLYDSNQDFF 263
I + L A KVG DY E +F FY ++V YD
Sbjct: 97 LITQMLKAPKKVGF------------DYASAREGLSAF----FYSQKV-SIAYD------ 133
Query: 264 QSFFKH---FKGVDIGFVELELKLPIAFEYEKFKNILKPPYGVLNLGAS--------DDS 312
+ K + E E+ ++ + F P LNL + + S
Sbjct: 134 EPILKRNSTLLSQALNLPEKEISQGLSSRAKAFSYQPSPKINALNLNGNKPKILFVLETS 193
Query: 313 RVYK-----RFDEMIYFLNPDYQLVLCGNSKKDEELANSILKRHKNAISLVNQTGLIEYL 367
++ K RF E+ L ++Q+ L ++ + + + +++ + L+ + L E
Sbjct: 194 KINKTYPTERFKELALMLE-NFQICLLWHANEKKAITLYHALKYQRDVLLLPKLTLNEVK 252
Query: 368 YLLKNASFAMGNESSITHLSACLKIP 393
LL +G ++ ITHL+ L+ P
Sbjct: 253 ALLFKMDVIIGGDTGITHLAWALQKP 278
>ref|NP_223134.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 543
Score = 26.6 bits (57), Expect = 1.5
Identities = 35/150 (23%), Positives = 58/150 (38%), Gaps = 34/150 (22%)
Query: 230 DYRKRGEIRKSFYTHLFYPKEVPQFLYDSNQDFFQSFFKHFKGVDIGFVELELKLPIAFE 289
DY+ E K ++ K++P+ YD ++ F KHF D L LKL F
Sbjct: 67 DYKDFNEEEKEYFFLTLSDKKLPKLAYDELLNYL--FEKHFYDND-----LHLKLDAIFN 119
Query: 290 YEKFKNILKPPYGVLNLGASDDSRVYKRFDEMIYFLNPDYQLVLCGNSKKDEELANSILK 349
N + N ++D++ + F+ + ++N K S+L
Sbjct: 120 RISSNNA-----ELFNTKSTDETTI-ALFESVSQYIN---------EGSKRANFTRSLLD 164
Query: 350 RHKN------AISLVNQTG------LIEYL 367
+ KN ++L NQ G + EYL
Sbjct: 165 KLKNFNFKQAFLNLQNQQGYDFFAPIFEYL 194
>ref|NP_222986.1| putative LIPID A BIOSYNTHESIS ACYLTRANSFERASE [Helicobacter pylori
J99]
Length = 328
Score = 26.6 bits (57), Expect = 1.5
Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 17/121 (14%)
Query: 274 DIGFVELELKLPIAFEYEKFKNIL-----KPPYGVLNLGASDDSRVYKRFDEMIYF---L 325
D GF + EL++ F E NIL K P+ + + K FD YF
Sbjct: 17 DKGF-KTELRILSVFIVEFLVNILGFMLAKMPHFWFLRCVKALAWLMKTFDRRRYFDAKA 75
Query: 326 NPDYQLVLCGNSKKDEELANSILKRHKNAISLVNQTGLIEYLYLLK---NASFAMGNESS 382
N D+ + G+SK +EE I K ++N ++ +T I +++ K +A F + NE +
Sbjct: 76 NLDF---VFGDSKSEEEKKRIIKKGYENFAFIILET--IRVIFIPKDEYDARFTLINEEN 130
Query: 383 I 383
+
Sbjct: 131 V 131
>ref|NP_224135.1| CHROMOSOMAL REPLICATION INITIATOR PROTEIN [Helicobacter pylori J99]
Length = 457
Score = 25.8 bits (55), Expect = 2.6
Identities = 8/26 (30%), Positives = 18/26 (68%)
Query: 199 STKEDAIIKHLIAENKVGVFCTHPIE 224
+ K A++K ++++NKVG+ H ++
Sbjct: 59 TAKYGALLKEILSQNKVGMHLAHSVD 84
>ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobacter pylori J99]
Length = 1211
Score = 25.8 bits (55), Expect = 2.6
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 285 PIAFEYEKFKNILKPPYGVL 304
PIA+ +++ + ILKP YG +
Sbjct: 691 PIAYAFKELEPILKPTYGTI 710
>ref|NP_223589.1| proline/betaine transporter [Helicobacter pylori J99]
Length = 452
Score = 25.8 bits (55), Expect = 2.6
Identities = 16/46 (34%), Positives = 24/46 (51%), Gaps = 1/46 (2%)
Query: 369 LLKNASFAMGNESSITH-LSACLKIPYAFIVSSGLSSPRFHPYPKE 413
+ KN+ F + IT L+AC+ I F+ + L+ P FH P E
Sbjct: 240 VFKNSLFGISISMLITWVLTACILIFILFVPNFTLTHPNFHFTPFE 285
>ref|NP_223586.1| putative [Helicobacter pylori J99]
Length = 251
Score = 25.4 bits (54), Expect = 3.4
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 246 FYPKEVPQFLYDSNQDFFQSFFKHFKGVDIGFVELELKLPIAFEYEKFKNILKPPYGVLN 305
FY K++P F+ +SN F F K + L +KL + E E + LK +LN
Sbjct: 114 FYHKKIPLFV-ESNGSIFFEFSPILKELHF---TLSVKLSFSLEQESKRINLKALQNILN 169
>ref|NP_222989.1| 3-DEHYDROQUINATE SYNTHASE [Helicobacter pylori J99]
Length = 343
Score = 25.0 bits (53), Expect = 4.4
Identities = 16/56 (28%), Positives = 27/56 (47%), Gaps = 5/56 (8%)
Query: 267 FKHFKGVDIGF-----VELELKLPIAFEYEKFKNILKPPYGVLNLGASDDSRVYKR 317
F H + + IG + L L + EYE+ +N+LK + N +D + Y+R
Sbjct: 246 FLHGEAIAIGMRMANDLALSLGMLTLKEYERIENLLKKFDLIFNYQITDIQKFYER 301
>ref|NP_224160.1| TYPE II RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 326
Score = 24.6 bits (52), Expect = 5.8
Identities = 13/45 (28%), Positives = 25/45 (54%), Gaps = 1/45 (2%)
Query: 170 KFMRKRYEDVSNLRKESYEICINSSMFYFSTKEDAIIKHLIAENK 214
K ++ Y + N ++ + + + S+F+ + KE I+K L ENK
Sbjct: 157 KLDKRDYHNWKNQAQQIFSL-LEQSVFFETNKERLILKTLNEENK 200
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 24.6 bits (52), Expect = 5.8
Identities = 14/37 (37%), Positives = 22/37 (58%), Gaps = 2/37 (5%)
Query: 341 EELANSILKRHKNAI--SLVNQTGLIEYLYLLKNASF 375
E+++ I K H+ + LVN++ I YL L + ASF
Sbjct: 428 EKISEEIAKNHQVIVVYPLVNKSEKIPYLSLSEGASF 464
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 24.6 bits (52), Expect = 5.8
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 336 NSKKDEELANSILKRHKNAISLVNQTGLIEYLY 368
++KK E NS+LK+H+N L+EY +
Sbjct: 375 DNKKLEIYKNSVLKKHENYQKDKASLPLLEYFF 407
>ref|NP_223883.1| 30S RIBOSOMAL PROTEIN S18 [Helicobacter pylori J99]
Length = 85
Score = 24.6 bits (52), Expect = 5.8
Identities = 14/42 (33%), Positives = 24/42 (56%), Gaps = 3/42 (7%)
Query: 315 YKRFDEMIYFLNPDYQLV---LCGNSKKDEELANSILKRHKN 353
YK D + + L+ Y+++ L GNSKK +E +KR ++
Sbjct: 23 YKDLDMLKHTLSERYKIMPRRLTGNSKKWQERVEVAIKRARH 64
>ref|NP_223639.1| putative [Helicobacter pylori J99]
Length = 328
Score = 24.3 bits (51), Expect = 7.5
Identities = 14/52 (26%), Positives = 25/52 (47%), Gaps = 4/52 (7%)
Query: 22 IAFVLMVATIAKIPLIQKIPVIRRFFNSRYSF----QKDSLIRIQNQLDRLL 69
+A + + + +PL +K+P + F N+ +F + D IR L R L
Sbjct: 112 LALIEAIIIVCLLPLKEKVPYLVTFSNATQNFAIVQRADKSIRANQALVRQL 163
>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 969
Score = 23.9 bits (50), Expect = 9.8
Identities = 10/28 (35%), Positives = 16/28 (56%)
Query: 25 VLMVATIAKIPLIQKIPVIRRFFNSRYS 52
VL + K+ +++ I + R FF S YS
Sbjct: 109 VLAPSNAIKLGVLKSIEITREFFKSEYS 136
>ref|NP_224063.1| putative thiophene/furan oxidation protein [Helicobacter pylori
J99]
Length = 461
Score = 23.9 bits (50), Expect = 9.8
Identities = 26/128 (20%), Positives = 59/128 (45%), Gaps = 9/128 (7%)
Query: 342 ELANSILKRHKNAISLVNQTGLIEYLYLLKNASFAMGNESSITHLSACLKIPYAFIVSSG 401
+L+ + K N + +N+T + L KN + + + L + LKIPY+ + ++
Sbjct: 312 DLSKPLEKEDFNLMDTLNRTKKPCIVVLNKND---LAPKLELEILKSYLKIPYSILETNT 368
Query: 402 LSSPRFHPYPKEVGPNIHMIYPR-DFQKIISRSSDWMFKAMTMPHPPVDFVNPQDIISAI 460
L+S K++ I +P+ D Q + +S + + + + + N + + +
Sbjct: 369 LNS---KACLKDLSQKISEFFPKLDTQNKLLLTS--LAQTTALENAITELQNAKSHLDTL 423
Query: 461 KRFAPHLL 468
+ F+ H+L
Sbjct: 424 ELFSYHIL 431
>ref|NP_224002.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE) [Helicobacter
pylori J99]
Length = 649
Score = 23.9 bits (50), Expect = 9.8
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 92 IGDYILYRNFLPLFKKYFEDYE 113
I D +L FLPL YF+D E
Sbjct: 214 IADNLLGNEFLPLDTLYFKDLE 235
>ref|NP_223890.1| putative Peptide ABC transporter, ATP-binding protein [Helicobacter
pylori J99]
Length = 348
Score = 23.9 bits (50), Expect = 9.8
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 261 DFFQSFFKHFKGVDIGFVELELKLPIAFEYEKFKNIL 297
DF +SF++ K +D+ ++ KLP++ F +L
Sbjct: 98 DFGESFYRQIKVIDL----IKEKLPVSISLGFFSTLL 130
>ref|NP_223778.1| ATP synthase F1, subunit gamma [Helicobacter pylori J99]
Length = 301
Score = 23.9 bits (50), Expect = 9.8
Identities = 19/79 (24%), Positives = 34/79 (42%), Gaps = 10/79 (12%)
Query: 87 IRLDIIGDYILYR----NFLPLFKKYFEDYETTFIGNATI------KGIATHCDSQYIDK 136
++LD + D +L + + KYF + E I I KG+ ++ I K
Sbjct: 47 LKLDAVFDDVLSKMKNQGIEDIQSKYFRELERLEIKKVDIIFITADKGLCGGFNTNTIKK 106
Query: 137 FIFLDNAYWEKYLRIGVNG 155
+ N Y EK +++ + G
Sbjct: 107 VLACTNEYKEKDIKVRLRG 125
>ref|NP_223174.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 406
Score = 23.9 bits (50), Expect = 9.8
Identities = 37/184 (20%), Positives = 69/184 (37%), Gaps = 19/184 (10%)
Query: 255 LYDSNQDFFQSFFKHFKGVDIGFVELELKLPIAFEYEKFKNILKPPYGVLNLGASDDSRV 314
+Y +D+F F + I F E L ++ + +++I+K L A+
Sbjct: 113 IYKKGEDYFLDF------IPIVFTRKERTLLLSLQTSPYQDIVKATNDPLL--ANQLMNA 164
Query: 315 YKR---FDEMIYFLNPDYQLVLCGNSKKDEELANSILKRHKNAISLVNQTGLIEYLYLLK 371
YK+ F ++ N +V + + + +K +++V+ YL+
Sbjct: 165 YKKSVPFKRLVK--NDKIAIVYTRDYRVGQAFGQPTIK-----MAMVSSRLHQYYLFSHS 217
Query: 372 NASFAMGNESSITHLSACLKIPYAFIVSSGLSSPRFHPYPKEVGPNIHMIYPRDFQKIIS 431
N + + + Y I SS S RFHP K P+ + Y +I
Sbjct: 218 NGRYYDSKAQEVAGFLLETPVKYTRI-SSPFSYGRFHPVLKVKRPHYGVDYAAKHGSLIH 276
Query: 432 RSSD 435
+SD
Sbjct: 277 SASD 280
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
0.325 0.142 0.424
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 534,853
Number of Sequences: 1491
Number of extensions: 25845
Number of successful extensions: 110
Number of sequences better than 10.0: 19
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 105
Number of HSP's gapped (non-prelim): 19
length of query: 485
length of database: 494,079
effective HSP length: 81
effective length of query: 404
effective length of database: 373,308
effective search space: 150816432
effective search space used: 150816432
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)