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|15645838|ref|NP_208016.1| uroporphyrinogen III
cosynthase (hemD) [Helicobacter pylori 26695]
(226 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223863.1| putative UROPORPHYRINOGEN-III SYNTHASE [He... 389 e-110
ref|NP_224204.1| putative [Helicobacter pylori J99] 30 0.040
ref|NP_223659.1| putative [Helicobacter pylori J99] 27 0.45
ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter p... 26 0.99
ref|NP_222859.1| putative [Helicobacter pylori J99] 25 1.7
ref|NP_223496.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS PRO... 24 3.8
ref|NP_223101.1| putative [Helicobacter pylori J99] 24 3.8
ref|NP_222909.1| BETA-KETOACYL-ACP SYNTHASE III [Helicobact... 24 3.8
ref|NP_222889.1| APOLIPOPROTEIN N-ACYLTRANSFERASE [Helicoba... 24 3.8
ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (... 23 4.9
ref|NP_224035.1| ISOLEUCYL-TRNA SYNTHETASE [Helicobacter py... 23 4.9
ref|NP_223956.1| 50S RIBOSOMAL PROTEIN L4 [Helicobacter pyl... 23 6.4
ref|NP_223584.1| putative [Helicobacter pylori J99] 23 6.4
ref|NP_223500.1| PHOSPHOMETHYLPYRIMIDINE KINASE [Helicobact... 23 6.4
ref|NP_223263.1| 8-amino-7-oxononanoate synthase [Helicobac... 23 6.4
ref|NP_223879.1| putative [Helicobacter pylori J99] 23 8.4
ref|NP_223244.1| putative [Helicobacter pylori J99] 23 8.4
ref|NP_223199.1| cag island protein [Helicobacter pylori J99] 23 8.4
ref|NP_223145.1| Molybdate ABC transporter, ATP-binding pro... 23 8.4
ref|NP_222991.1| putative [Helicobacter pylori J99] 23 8.4
>ref|NP_223863.1| putative UROPORPHYRINOGEN-III SYNTHASE [Helicobacter pylori J99]
Length = 223
Score = 389 bits (998), Expect = e-110
Identities = 196/222 (88%), Positives = 209/222 (93%)
Query: 1 MREIVWVHSQRIAPYKTLILNEFCYYPLELDPTPFNALIFTSKNAVFSLLETLKNSPKLK 60
MREIVWVHSQRIAPYKTLILNE YYPLE D TPFNALIFTSKNAVFSLLETL NSPKLK
Sbjct: 1 MREIVWVHSQRIAPYKTLILNELHYYPLESDLTPFNALIFTSKNAVFSLLETLNNSPKLK 60
Query: 61 MLQNIPAYALSEPTAKTLQDHHFKVAFMGEKAHGKEFVQEIFPLLEKKSVLYLRAKEIVS 120
MLQNIPAYALSEPTAKTLQDHHFK AF+G+KAHGKEF +EI PLLEKKSVLYLRAKEI S
Sbjct: 61 MLQNIPAYALSEPTAKTLQDHHFKTAFIGKKAHGKEFAKEILPLLEKKSVLYLRAKEIAS 120
Query: 121 SLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEKSILIFTAISHAKAFLHYFEFL 180
SLDTILLEHGI+ +QAVVYENKLKHLTLSEQNALKP+EKS+LIFTAISHAKAFLHYFEFL
Sbjct: 121 SLDTILLEHGINLQQAVVYENKLKHLTLSEQNALKPQEKSVLIFTAISHAKAFLHYFEFL 180
Query: 181 ENYTAISIGNTTALYLQEQGIPSYIAKKPSLEACLELALSLR 222
++YTAISIGNTTA YLQEQGI SY A+KPSLE+CLELAL+L+
Sbjct: 181 KSYTAISIGNTTAHYLQEQGIQSYTAQKPSLESCLELALNLK 222
>ref|NP_224204.1| putative [Helicobacter pylori J99]
Length = 140
Score = 30.4 bits (67), Expect = 0.040
Identities = 21/82 (25%), Positives = 43/82 (51%), Gaps = 3/82 (3%)
Query: 100 EIFPLLEKKSVLYLRAKEIVSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEK 159
E + ++ + S +L+AKE++++++ +E G D Q + + L++L+ +EQ EK
Sbjct: 20 EHYEIIAELSKAFLKAKEVLTAINKTCIETGHDRTQIRLQNDFLENLSQTEQQFDDYFEK 79
Query: 160 SILIFTAISHAKAFLHYFEFLE 181
F ++ K L + LE
Sbjct: 80 D---FKSVGVLKTLLKDIQSLE 98
>ref|NP_223659.1| putative [Helicobacter pylori J99]
Length = 677
Score = 26.9 bits (58), Expect = 0.45
Identities = 32/123 (26%), Positives = 50/123 (40%), Gaps = 32/123 (26%)
Query: 41 TSKNAVFSLLETLKNSPKLKMLQNIPAYALSEPT----AKTLQDHHFKVAFMGEKAHGKE 96
T KNA FS + K QN P Y L++ T +K LQD+
Sbjct: 451 TFKNAYFSARKYQFMLESFKTKQNDPTYKLNDNTYELVSKQLQDY--------------- 495
Query: 97 FVQEIFPLLEKKSVLYLRAKEIVSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKP 156
++ + L AKE + L+ L + +F++A E+ +K + +L P
Sbjct: 496 -----------QNTMLLLAKERLLFLEQDLKQKEEEFERA--KEHYVKSSKHYRETSLSP 542
Query: 157 KEK 159
KEK
Sbjct: 543 KEK 545
>ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter pylori J99]
Length = 658
Score = 25.8 bits (55), Expect = 0.99
Identities = 27/102 (26%), Positives = 44/102 (42%), Gaps = 10/102 (9%)
Query: 27 PLELDPTPFNALIFTSKNAVFSLLETLKNSPKLKMLQNIPAYALSEPTAKTLQDHHFKVA 86
P LD P F KN F + N +L++ Q A + PT L D F+V
Sbjct: 371 PSALDNRPLKFDEFIHKNCQFLFVSATPNKLELELSQKNVAEQIIRPTG--LLDPKFEVR 428
Query: 87 FMGEKAHGKEFVQEIFPLLEKKSVLYLRAKEIVSSLDTILLE 128
++ VQ++F E KSV+ + ++++L + E
Sbjct: 429 DSDKQ------VQDLFD--EIKSVVARGERVLITTLTKKMAE 462
>ref|NP_222859.1| putative [Helicobacter pylori J99]
Length = 193
Score = 25.0 bits (53), Expect = 1.7
Identities = 36/168 (21%), Positives = 70/168 (41%), Gaps = 31/168 (18%)
Query: 20 LNEFCYYPLELDPTPFNALIFTSKNAVFSLLETLKNSPKLKMLQ-------NIPAYALSE 72
+ E ++PL + + LIF VF ++ LKNSPK ++ ++ A+ +
Sbjct: 1 MKEKNFWPLGI----MSVLIFGLGIVVFLVVFALKNSPKNDLVYFKGHNEVDLNFNAMLK 56
Query: 73 PTAKTLQDHHFKVA--------------FMGEKAHGKEFVQEIF----PLLEKKSVLYLR 114
++ F V + + HG + +QE +LEK + LY +
Sbjct: 57 TYENFKSNYRFSVGLKPLTESPKTPILPYFSKGTHGDKKIQENLLNNALILEKSNTLYAQ 116
Query: 115 AKEIVSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEKSIL 162
+ + +LD+ ++ + F + L TL +NA +P + +L
Sbjct: 117 LQPLKPALDSPNIQVYLAFYPSQSQPRLLG--TLDCKNACEPLKFDLL 162
>ref|NP_223496.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS PROTEIN [Helicobacter pylori
J99]
Length = 333
Score = 23.9 bits (50), Expect = 3.8
Identities = 19/108 (17%), Positives = 42/108 (38%), Gaps = 18/108 (16%)
Query: 73 PTAKTLQDHHFKVAFMGEKAHGKEFVQEIFPLLEKKSVLYLRAKEIVSS----------- 121
P + + D+ + G + GK FV+++ K ++ E+ S
Sbjct: 2 PNHQNMLDNQTILITGGTGSFGKRFVRKVLDTTNAKKIIVYSRDELKQSEMAMEFNDPRM 61
Query: 122 -------LDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEKSIL 162
D L + ++ ++ LKH+ ++E N L+ + +I+
Sbjct: 62 RFFIGDVRDLERLNYALEGVDICIHAAALKHVPIAEYNPLECIKTNIM 109
>ref|NP_223101.1| putative [Helicobacter pylori J99]
Length = 347
Score = 23.9 bits (50), Expect = 3.8
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 14/60 (23%)
Query: 78 LQDHHFKVAFMGEKAHGK-------------EFVQEIFPLLEKKSVLYLR-AKEIVSSLD 123
L DHH + E H EF+++ + +LE K+ L+L E+V+S+D
Sbjct: 92 LLDHHISGKEVAESFHWYFLDTNRCATKIVYEFLKKYYAILESKNTLWLEPLVEMVNSVD 151
>ref|NP_222909.1| BETA-KETOACYL-ACP SYNTHASE III [Helicobacter pylori J99]
Length = 331
Score = 23.9 bits (50), Expect = 3.8
Identities = 9/17 (52%), Positives = 11/17 (63%)
Query: 21 NEFCYYPLELDPTPFNA 37
+ + Y P L PTPFNA
Sbjct: 191 SNYLYTPRTLKPTPFNA 207
Score = 23.9 bits (50), Expect = 3.8
Identities = 16/52 (30%), Positives = 25/52 (47%), Gaps = 5/52 (9%)
Query: 147 TLSEQNALKPKEKSILI-----FTAISHAKAFLHYFEFLENYTAISIGNTTA 193
T+ E+NALKP++ + I F I + L + + T GNT+A
Sbjct: 237 TILEKNALKPEDVRLFIPHQANFRIIQAVREHLDFKDEQVVLTVHKYGNTSA 288
>ref|NP_222889.1| APOLIPOPROTEIN N-ACYLTRANSFERASE [Helicobacter pylori J99]
Length = 425
Score = 23.9 bits (50), Expect = 3.8
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 16 KTLILNEFCYYPLELDPTPFNALIFTSKNAVFSLLETLK 54
KTLI+ YP+ L+ +PF + + + L+ TL+
Sbjct: 235 KTLIVFPETAYPIALENSPFKTQLEDLSDKIAILIGTLR 273
Score = 23.5 bits (49), Expect = 4.9
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 5/80 (6%)
Query: 119 VSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEKSILIFTAISHAKA-----F 173
V +++ + D K Y N +++ L E + K+K++++F ++ A F
Sbjct: 195 VGNIELVSTRTPQDLKFDSNYLNNIENNILKEIKLAQSKQKTLIVFPETAYPIALENSPF 254
Query: 174 LHYFEFLENYTAISIGNTTA 193
E L + AI IG A
Sbjct: 255 KTQLEDLSDKIAILIGTLRA 274
>ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 678
Score = 23.5 bits (49), Expect = 4.9
Identities = 14/51 (27%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 94 GKEFVQEIFPLLEKKSVLYLRAKEIVSSLDTILLEHGIDFKQAVVYENKLK 144
G + +++I LE+K + + + I+SSL+ +L + +A+ E++LK
Sbjct: 272 GDKILRKIRSFLERKQLPLEKRESIISSLEPLLKNE--NNNKAINGESRLK 320
>ref|NP_224035.1| ISOLEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 920
Score = 23.5 bits (49), Expect = 4.9
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 104 LLEKKSVLYLRAKEIVSSLDTILLEHGIDFKQAVV----YENKLK 144
++++K ++K V SLD +L +HG D + V Y+N L+
Sbjct: 603 IVDEKGEKMSKSKGNVVSLDNLLKKHGSDVVRLWVAFNDYQNDLR 647
>ref|NP_223956.1| 50S RIBOSOMAL PROTEIN L4 [Helicobacter pylori J99]
Length = 215
Score = 23.1 bits (48), Expect = 6.4
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 11/56 (19%)
Query: 135 QAVVYENKLKHLTLSEQNALKPKEKSILIFTAISHAKAFLHYFEFLENYTAISIGN 190
+ VV +NK KHLT + E+ +F ++ ++ YT ++ N
Sbjct: 131 KGVVEDNKRKHLTKEANQMFQALEQRDTLFVCLN-----------MDEYTELAFSN 175
>ref|NP_223584.1| putative [Helicobacter pylori J99]
Length = 219
Score = 23.1 bits (48), Expect = 6.4
Identities = 10/26 (38%), Positives = 17/26 (64%)
Query: 97 FVQEIFPLLEKKSVLYLRAKEIVSSL 122
F Q FPL + K+V+Y+R +S++
Sbjct: 78 FTQAEFPLDKAKNVIYVRIVRNISAV 103
>ref|NP_223500.1| PHOSPHOMETHYLPYRIMIDINE KINASE [Helicobacter pylori J99]
Length = 269
Score = 23.1 bits (48), Expect = 6.4
Identities = 15/36 (41%), Positives = 20/36 (54%), Gaps = 2/36 (5%)
Query: 119 VSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNAL 154
+SSL LL G+D K A+ +L LT+ QN L
Sbjct: 218 LSSLIVGLLAQGLDLKNAITKAKEL--LTIIIQNPL 251
>ref|NP_223263.1| 8-amino-7-oxononanoate synthase [Helicobacter pylori J99]
Length = 373
Score = 23.1 bits (48), Expect = 6.4
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 36 NALIFTSKNAVFSLLETLKNSPKLKM 61
N +IF S N + L + L N+PK K+
Sbjct: 130 NQVIFFSHNDIKDLKQKLFNAPKNKL 155
>ref|NP_223879.1| putative [Helicobacter pylori J99]
Length = 190
Score = 22.7 bits (47), Expect = 8.4
Identities = 12/27 (44%), Positives = 16/27 (58%), Gaps = 2/27 (7%)
Query: 120 SSLDTILLEHGIDFKQAVVY--ENKLK 144
S+ +L EHGI F+Q +Y E LK
Sbjct: 10 SARANLLKEHGIKFEQKALYFDEESLK 36
>ref|NP_223244.1| putative [Helicobacter pylori J99]
Length = 183
Score = 22.7 bits (47), Expect = 8.4
Identities = 14/44 (31%), Positives = 20/44 (44%)
Query: 178 EFLENYTAISIGNTTALYLQEQGIPSYIAKKPSLEACLELALSL 221
EFL ++TA + L L +I KKP LE ++ L
Sbjct: 52 EFLSSFTAPLSPFSCLLILAYASFSCHILKKPPLETLQSYSVML 95
>ref|NP_223199.1| cag island protein [Helicobacter pylori J99]
Length = 280
Score = 22.7 bits (47), Expect = 8.4
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 41 TSKNAVFSLLETLKNSPKLKMLQNI 65
T KN +LETL N +M QN+
Sbjct: 212 TRKNNQREILETLSNRAGYQMRQNV 236
>ref|NP_223145.1| Molybdate ABC transporter, ATP-binding protein [Helicobacter pylori
J99]
Length = 265
Score = 22.7 bits (47), Expect = 8.4
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 85 VAFMGEKAHGKEFVQEIFPLLEKKSVLYLRAKEIV 119
VA +GE GK + I LE S Y+ A V
Sbjct: 31 VALLGESGAGKSTILRILAGLEAVSSGYIEANHSV 65
>ref|NP_222991.1| putative [Helicobacter pylori J99]
Length = 418
Score = 22.7 bits (47), Expect = 8.4
Identities = 17/54 (31%), Positives = 27/54 (49%), Gaps = 4/54 (7%)
Query: 10 QRIAPYKTLILNE---FCYYPLELDPTPFNALIFTSKNAVFSLLETLKNSPKLK 60
+R+ K LI ++ F L+L+ TP AL+ K+ F L+ N K+K
Sbjct: 340 KRLNAIKDLIFHKNKAFRQLQLKLN-TPLKALVEAQKDGEFKALDQFFNPIKIK 392
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
0.320 0.136 0.385
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 238,955
Number of Sequences: 1491
Number of extensions: 10840
Number of successful extensions: 50
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 36
Number of HSP's gapped (non-prelim): 22
length of query: 226
length of database: 494,079
effective HSP length: 75
effective length of query: 151
effective length of database: 382,254
effective search space: 57720354
effective search space used: 57720354
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)