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|15645722|ref|NP_207899.1| pyruvate ferredoxin
oxidoreductase, gamma subunit [Helicobacter pylori 26695]
(186 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1KEK|A Chain A, Crystal Structure Of The Free Radical I... 49 5e-07
pdb|1A6D|A Chain A, Thermosome From T. Acidophilum >gi|4699... 30 0.22
pdb|1KCF|A Chain A, Crystal Structure Of The Yeast Mitochon... 26 2.4
pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase >gi|1865554... 25 4.2
pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Diki... 25 4.2
pdb|1DIK| Pyruvate Phosphate Dikinase 25 4.2
pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Diki... 25 4.2
pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dik... 25 4.2
pdb|1EG7|A Chain A, The Crystal Structure Of Formyltetrahyd... 25 5.4
pdb|1FPM|A Chain A, Monovalent Cation Binding Sites In N10-... 25 5.4
pdb|1FOK|A Chain A, Structure Of Restriction Endonuclease F... 25 5.4
pdb|1B25|A Chain A, Formaldehyde Ferredoxin Oxidoreductase ... 25 7.1
pdb|1NSJ| Crystal Structure Of Phosphoribosyl Anthranilat... 24 9.3
pdb|1CFZ|A Chain A, Hydrogenase Maturating Endopeptidase Hy... 24 9.3
pdb|1F91|A Chain A, Beta-Ketoacyl-[acyl-Carrier-Protein] Sy... 24 9.3
pdb|1EK4|A Chain A, Beta-Ketoacyl [acyl Carrier Protein] Sy... 24 9.3
pdb|1M6N|A Chain A, Crystal Structure Of The Seca Transloca... 24 9.3
pdb|1FJ8|A Chain A, The Structure Of Beta-Ketoacyl-[acyl Ca... 24 9.3
pdb|1DD8|A Chain A, Crystal Structure Of Beta-Ketoacyl-[acy... 24 9.3
>pdb|1KEK|A Chain A, Crystal Structure Of The Free Radical Intermediate Of
Pyruvate:ferredoxin Oxidoreductase
pdb|1KEK|B Chain B, Crystal Structure Of The Free Radical Intermediate Of
Pyruvate:ferredoxin Oxidoreductase
pdb|1B0P|A Chain A, Crystal Structure Of Pyruvate-Ferredoxin Oxidoreductase
From Desulfovibrio Africanus
pdb|1B0P|B Chain B, Crystal Structure Of Pyruvate-Ferredoxin Oxidoreductase
From Desulfovibrio Africanus
pdb|2PDA|A Chain A, Crystal Structure Of The Complex Between Pyruvate-
Ferredoxin Oxidoreductase From Desulfovibrio Africanus
And Pyruvate.
pdb|2PDA|B Chain B, Crystal Structure Of The Complex Between Pyruvate-
Ferredoxin Oxidoreductase From Desulfovibrio Africanus
And Pyruvate
Length = 1231
Score = 48.5 bits (114), Expect = 5e-07
Identities = 46/197 (23%), Positives = 87/197 (43%), Gaps = 14/197 (7%)
Query: 3 QIRWHARAGQGAITGAKGLADVIS-KTGKEVQAFASYGSAKRGAAMMAYNRVDDEPILNH 61
Q ++ G + K +I T Q + SY S K G +++ R ++PI +
Sbjct: 418 QCQFWGLGADGTVGANKQAIKIIGDNTDLFAQGYFSYDSKKSGGITISHLRFGEKPIQST 477
Query: 62 ERFMQPDYVLVIDPGLVFIENIFANEKEDTTYIITS-YLNKEELFEKKPE-------LKT 113
+ DYV +P V I +I K+ T+++ S + + E++ + P K
Sbjct: 478 YLVNRADYVACHNPAYVGIYDILEGIKDGGTFVLNSPWSSLEDMDKHLPSGIKRTIANKK 537
Query: 114 RKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGML----EIGAFKEAFKKVLGKKLTQE 169
K + +D +KI+ + N M A K++G+L + K++ K GKK ++
Sbjct: 538 LKFYNIDAVKIATDVGLGGRINMIMQTAFFKLAGVLPFEKAVDLLKKSIHKAYGKK-GEK 596
Query: 170 VIDANMLAIQRAYEEVQ 186
++ N A+ +A +Q
Sbjct: 597 IVKMNTDAVDQAVTSLQ 613
>pdb|1A6D|A Chain A, Thermosome From T. Acidophilum
pdb|1A6E|A Chain A, Thermosome - Mg-Adp-Alf3 Complex
Length = 545
Score = 29.6 bits (65), Expect = 0.22
Identities = 25/117 (21%), Positives = 52/117 (44%), Gaps = 13/117 (11%)
Query: 72 VIDPGLVFIENIFANEKEDTTYIITSYLNKEELFEKKPE-LKTRKVFLVDCLKISMETLK 130
++D + ++ DT +I ++KE++ K P+ +K K+ L+D ++E K
Sbjct: 191 IVDTANIKVDKKNGGSVNDTQFISGIVIDKEKVHSKMPDVVKNAKIALIDS---ALEIKK 247
Query: 131 RPIPNTPMLGALMKVSGML--EIGAFKEAFKKVLGKKLTQEVIDANMLAIQRAYEEV 185
I + K+ L E FK+ +K+ + AN++ Q+ ++V
Sbjct: 248 TEIEAKVQISDPSKIQDFLNQETNTFKQMVEKI-------KKSGANVVLCQKGIDDV 297
>pdb|1KCF|A Chain A, Crystal Structure Of The Yeast Mitochondrial Holliday
Junction Resolvase, Ydc2
pdb|1KCF|B Chain B, Crystal Structure Of The Yeast Mitochondrial Holliday
Junction Resolvase, Ydc2
Length = 258
Score = 26.2 bits (56), Expect = 2.4
Identities = 22/69 (31%), Positives = 32/69 (45%), Gaps = 7/69 (10%)
Query: 39 GSAKRGAAMMAYNRVDDEPILNHERFMQPDYVLVIDPGLVFIENIFANEKEDTTYIITSY 98
G ++ G R+ D PI R VL ID G+ FA++ ED+ II ++
Sbjct: 17 GLSRSGRKDELLRRIVDSPIYPTSR------VLGIDLGIKNFSYCFASQNEDSKVIIHNW 70
Query: 99 LNKEELFEK 107
+ E L EK
Sbjct: 71 -SVENLTEK 78
>pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase
pdb|1KC7|A Chain A, Pyruvate Phosphate Dikinase With Bound
Mg-Phosphonopyruvate
Length = 873
Score = 25.4 bits (54), Expect = 4.2
Identities = 18/68 (26%), Positives = 28/68 (40%), Gaps = 14/68 (20%)
Query: 105 FEKKPELKTRKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAFKKVLGK 164
FE +K RK+ L D ++ E L IP + G FK +K + G+
Sbjct: 566 FEADRIMKIRKMILSDSVEAREEALNELIP--------------FQKGDFKAMYKALEGR 611
Query: 165 KLTQEVID 172
+T +D
Sbjct: 612 PMTVRYLD 619
>pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Dikinase
Length = 873
Score = 25.4 bits (54), Expect = 4.2
Identities = 18/68 (26%), Positives = 28/68 (40%), Gaps = 14/68 (20%)
Query: 105 FEKKPELKTRKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAFKKVLGK 164
FE +K RK+ L D ++ E L IP + G FK +K + G+
Sbjct: 566 FEADRIMKIRKMILSDSVEAREEALNELIP--------------FQKGDFKAMYKALEGR 611
Query: 165 KLTQEVID 172
+T +D
Sbjct: 612 PMTVRYLD 619
>pdb|1DIK| Pyruvate Phosphate Dikinase
Length = 874
Score = 25.4 bits (54), Expect = 4.2
Identities = 18/68 (26%), Positives = 28/68 (40%), Gaps = 14/68 (20%)
Query: 105 FEKKPELKTRKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAFKKVLGK 164
FE +K RK+ L D ++ E L IP + G FK +K + G+
Sbjct: 567 FEADRIMKIRKMILSDSVEAREEALNELIP--------------FQKGDFKAMYKALEGR 612
Query: 165 KLTQEVID 172
+T +D
Sbjct: 613 PMTVRYLD 620
>pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 25.4 bits (54), Expect = 4.2
Identities = 18/68 (26%), Positives = 28/68 (40%), Gaps = 14/68 (20%)
Query: 105 FEKKPELKTRKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAFKKVLGK 164
FE +K RK+ L D ++ E L IP + G FK +K + G+
Sbjct: 566 FEADRIMKIRKMILSDSVEAREEALNELIP--------------FQKGDFKAMYKALEGR 611
Query: 165 KLTQEVID 172
+T +D
Sbjct: 612 PMTVRYLD 619
>pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 25.4 bits (54), Expect = 4.2
Identities = 18/68 (26%), Positives = 28/68 (40%), Gaps = 14/68 (20%)
Query: 105 FEKKPELKTRKVFLVDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAFKKVLGK 164
FE +K RK+ L D ++ E L IP + G FK +K + G+
Sbjct: 566 FEADRIMKIRKMILSDSVEAREEALNELIP--------------FQKGDFKAMYKALEGR 611
Query: 165 KLTQEVID 172
+T +D
Sbjct: 612 PMTVRYLD 619
>pdb|1EG7|A Chain A, The Crystal Structure Of Formyltetrahydrofolate
Synthetase From Moorella Thermoacetica
pdb|1EG7|B Chain B, The Crystal Structure Of Formyltetrahydrofolate
Synthetase From Moorella Thermoacetica
Length = 557
Score = 25.0 bits (53), Expect = 5.4
Identities = 10/23 (43%), Positives = 15/23 (64%)
Query: 10 AGQGAITGAKGLADVISKTGKEV 32
AG+G T + GL D +++ GK V
Sbjct: 70 AGEGKTTTSVGLTDALARLGKRV 92
>pdb|1FPM|A Chain A, Monovalent Cation Binding Sites In N10-
Formyltetrahydrofolate Synthetase From Moorella
Thermoacetica
pdb|1FP7|A Chain A, Monovalent Cation Binding Sites In N10-
Formyltetrahydrofolate Synthetase From Moorella
Thermoacetica
pdb|1FPM|B Chain B, Monovalent Cation Binding Sites In N10-
Formyltetrahydrofolate Synthetase From Moorella
Thermoacetica
pdb|1FP7|B Chain B, Monovalent Cation Binding Sites In N10-
Formyltetrahydrofolate Synthetase From Moorella
Thermoacetica
Length = 557
Score = 25.0 bits (53), Expect = 5.4
Identities = 10/23 (43%), Positives = 15/23 (64%)
Query: 10 AGQGAITGAKGLADVISKTGKEV 32
AG+G T + GL D +++ GK V
Sbjct: 70 AGEGKTTTSVGLTDALARLGKRV 92
>pdb|1FOK|A Chain A, Structure Of Restriction Endonuclease Foki Bound To Dna
Length = 568
Score = 25.0 bits (53), Expect = 5.4
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 95 ITSYLNKEELFEKKPELKTRKVFL----VDCLKISMETLKRPIPNTPMLGALMKVSG 147
+T L K EL EKK EL+ + ++ ++ ++I+ + + I ++ MKV G
Sbjct: 370 VTKQLVKSELEEKKSELRHKLKYVPHEYIELIEIARNSTQDRILEMKVMEFFMKVYG 426
>pdb|1B25|A Chain A, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus
pdb|1B25|B Chain B, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus
pdb|1B25|C Chain C, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus
pdb|1B25|D Chain D, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus
pdb|1B4N|A Chain A, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus, Complexed With Glutarate
pdb|1B4N|B Chain B, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus, Complexed With Glutarate
pdb|1B4N|C Chain C, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus, Complexed With Glutarate
pdb|1B4N|D Chain D, Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus
Furiosus, Complexed With Glutarate
Length = 619
Score = 24.6 bits (52), Expect = 7.1
Identities = 16/49 (32%), Positives = 25/49 (50%), Gaps = 2/49 (4%)
Query: 9 RAGQGAITGAKGLADVISKTGKEVQAFASYGSAKRGAAMMAYNRVDDEP 57
R G GA+ G+K L V+ + KE+ A K+ + AYN + + P
Sbjct: 184 RPGMGAVMGSKKLKAVVIRGTKEIPV-ADKEELKK-LSQEAYNEILNSP 230
>pdb|1NSJ| Crystal Structure Of Phosphoribosyl Anthranilate Isomerase From
Thermotoga Maritima
Length = 205
Score = 24.3 bits (51), Expect = 9.3
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 62 ERFMQPDYVLVID---PGLVFIENIFANEKEDTTYIITSY--LNKEELFEKKPELKTRKV 116
+R++ P+ I P VF +F NE+ + + SY LN +L ++P RK+
Sbjct: 35 KRYISPEDARRISVELPPFVFRVGVFVNEEPEKILDVASYVQLNAVQLHGEEPIELCRKI 94
>pdb|1CFZ|A Chain A, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|B Chain B, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|C Chain C, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|D Chain D, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|E Chain E, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|F Chain F, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
Length = 162
Score = 24.3 bits (51), Expect = 9.3
Identities = 16/63 (25%), Positives = 29/63 (45%), Gaps = 8/63 (12%)
Query: 62 ERFMQPDYVLVIDPGLVFIENIFANEKEDTTYIITSYLNKEEL--------FEKKPELKT 113
+R++ PDYV ++D G +E + D I + ++K+ E+ P L T
Sbjct: 28 QRYILPDYVEILDGGTAGMELLGDMANRDHLIIADAIVSKKNAPGTMMILRDEEVPALFT 87
Query: 114 RKV 116
K+
Sbjct: 88 NKI 90
>pdb|1F91|A Chain A, Beta-Ketoacyl-[acyl-Carrier-Protein] Synthase I In Complex
With C10 Fatty Acid Substrate
pdb|1F91|B Chain B, Beta-Ketoacyl-[acyl-Carrier-Protein] Synthase I In Complex
With C10 Fatty Acid Substrate
pdb|1F91|C Chain C, Beta-Ketoacyl-[acyl-Carrier-Protein] Synthase I In Complex
With C10 Fatty Acid Substrate
pdb|1F91|D Chain D, Beta-Ketoacyl-[acyl-Carrier-Protein] Synthase I In Complex
With C10 Fatty Acid Substrate
Length = 406
Score = 24.3 bits (51), Expect = 9.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 119 VDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAF 158
V C+K++M + PI G V + E+ A +E F
Sbjct: 278 VRCMKMAMHGVDTPIDYLNSHGTSTPVGDVKELAAIREVF 317
>pdb|1EK4|A Chain A, Beta-Ketoacyl [acyl Carrier Protein] Synthase I In Complex
With Dodecanoic Acid To 1.85 Resolution
pdb|1EK4|B Chain B, Beta-Ketoacyl [acyl Carrier Protein] Synthase I In Complex
With Dodecanoic Acid To 1.85 Resolution
pdb|1EK4|C Chain C, Beta-Ketoacyl [acyl Carrier Protein] Synthase I In Complex
With Dodecanoic Acid To 1.85 Resolution
pdb|1EK4|D Chain D, Beta-Ketoacyl [acyl Carrier Protein] Synthase I In Complex
With Dodecanoic Acid To 1.85 Resolution
Length = 418
Score = 24.3 bits (51), Expect = 9.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 119 VDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAF 158
V C+K++M + PI G V + E+ A +E F
Sbjct: 290 VRCMKMAMHGVDTPIDYLNSHGTSTPVGDVKELAAIREVF 329
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 24.3 bits (51), Expect = 9.3
Identities = 16/52 (30%), Positives = 25/52 (47%), Gaps = 5/52 (9%)
Query: 73 IDPGLVFIENIFANEKEDTTY-----IITSYLNKEELFEKKPELKTRKVFLV 119
+D G + +IF E ++ IIT Y KEE F K+ + KV ++
Sbjct: 666 LDEGALEKSDIFGKEPDEMLELIMDRIITKYNEKEEQFGKEQMREFEKVIVL 717
>pdb|1FJ8|A Chain A, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Cerulenin, Implications For
Drug Design
pdb|1FJ8|B Chain B, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Cerulenin, Implications For
Drug Design
pdb|1FJ8|C Chain C, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Cerulenin, Implications For
Drug Design
pdb|1FJ8|D Chain D, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Cerulenin, Implications For
Drug Design
pdb|1FJ4|A Chain A, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Thiolactomycin, Implications
For Drug Design
pdb|1FJ4|B Chain B, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Thiolactomycin, Implications
For Drug Design
pdb|1FJ4|C Chain C, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Thiolactomycin, Implications
For Drug Design
pdb|1FJ4|D Chain D, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I In Complex With Thiolactomycin, Implications
For Drug Design
pdb|1G5X|A Chain A, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I
pdb|1G5X|B Chain B, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I
pdb|1G5X|C Chain C, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I
pdb|1G5X|D Chain D, The Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I
Length = 406
Score = 24.3 bits (51), Expect = 9.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 119 VDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAF 158
V C+K++M + PI G V + E+ A +E F
Sbjct: 278 VRCMKMAMHGVDTPIDYLNSHGTSTPVGDVKELAAIREVF 317
>pdb|1DD8|A Chain A, Crystal Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I From Escherichia Coli
pdb|1DD8|B Chain B, Crystal Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I From Escherichia Coli
pdb|1DD8|C Chain C, Crystal Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I From Escherichia Coli
pdb|1DD8|D Chain D, Crystal Structure Of Beta-Ketoacyl-[acyl Carrier Protein]
Synthase I From Escherichia Coli
Length = 406
Score = 24.3 bits (51), Expect = 9.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 119 VDCLKISMETLKRPIPNTPMLGALMKVSGMLEIGAFKEAF 158
V C+K++M + PI G V + E+ A +E F
Sbjct: 278 VRCMKMAMHGVDTPIDYLNSHGTSTPVGDVKELAAIREVF 317
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.320 0.136 0.381
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 990,892
Number of Sequences: 13198
Number of extensions: 37864
Number of successful extensions: 122
Number of sequences better than 10.0: 19
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 115
Number of HSP's gapped (non-prelim): 20
length of query: 186
length of database: 2,899,336
effective HSP length: 83
effective length of query: 103
effective length of database: 1,803,902
effective search space: 185801906
effective search space used: 185801906
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: 51 (24.3 bits)