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|15645313|ref|NP_207484.1| acetyl coenzyme A
acetyltransferase (thiolase) (fadA) [Helicobacter pylori 26695]
(391 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|1DLU|A Chain A, Unliganded Biosynthetic Thiolase From Z... 355 4e-99
pdb|1QFL|A Chain A, Biosynthetic Thiolase From Zoogloea Ram... 351 7e-98
pdb|1PXT|B Chain B, Peroxisomal 3-Ketoacyl-Coa Thiolase (E.... 209 6e-55
pdb|1AFW|B Chain B, The 1.8 Angstrom Crystal Structure Of T... 209 6e-55
pdb|1KAS| Beta-Ketoacyl-Acp Synthase Ii From Escherichia ... 33 0.072
pdb|1FJ8|A Chain A, The Structure Of Beta-Ketoacyl-[acyl Ca... 29 0.80
pdb|1DD8|A Chain A, Crystal Structure Of Beta-Ketoacyl-[acy... 29 0.80
pdb|1DKG|D Chain D, Crystal Structure Of The Nucleotide Exc... 26 6.8
>pdb|1DLU|A Chain A, Unliganded Biosynthetic Thiolase From Zoogloea Ramigera
pdb|1DLU|B Chain B, Unliganded Biosynthetic Thiolase From Zoogloea Ramigera
pdb|1DLU|C Chain C, Unliganded Biosynthetic Thiolase From Zoogloea Ramigera
pdb|1DLU|D Chain D, Unliganded Biosynthetic Thiolase From Zoogloea Ramigera
pdb|1DLV|A Chain A, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With Coa
pdb|1DLV|B Chain B, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With Coa
pdb|1DLV|C Chain C, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With Coa
pdb|1DLV|D Chain D, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With Coa
Length = 389
Score = 355 bits (912), Expect = 4e-99
Identities = 186/387 (48%), Positives = 260/387 (67%), Gaps = 2/387 (0%)
Query: 4 VVVVAAKRSAVGSFLGSLKSVGAREMGVSVLKDALNASGLKPSDVDSVILGNVLGAGLGQ 63
+V+ +A R+AVGSF G+ + A E+G +V+ L +G+ +V+ VILG VL AG GQ
Sbjct: 2 IVIASAARTAVGSFNGAFANTPAHELGATVISAVLERAGVAAGEVNEVILGQVLPAGEGQ 61
Query: 64 NIARQIQLDAGIPNDKNAFSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGGVENMSAAPY 123
N ARQ + AG+P + A+ +N +CGS ++A+ L I G ++V GG+E+MS AP+
Sbjct: 62 NPARQAAMKAGVPQEATAWGMNQLCGSGLRAVALGMQQIATGDASIIVAGGMESMSMAPH 121
Query: 124 LSFDMRDGKRMGNANMIDSMIHDGLWDAFNNYHMGITADNVAQAYHISREDQDNFALQSQ 183
+ +R G +MG+ MID+MI DGL DAF YHMG TA+NVA+ + +SR++QD FA+ SQ
Sbjct: 122 CAH-LRGGVKMGDFKMIDTMIKDGLTDAFYGYHMGTTAENVAKQWQLSRDEQDAFAVASQ 180
Query: 184 LKARAAINAGKFQEEITPIEIANKKGVVVFKEDEYPRE-TTLESLAKLKPAFKKDGSVTA 242
KA AA G+F++EI P + +KG + DEY R TL+S+AKL+PAF K+G+VTA
Sbjct: 181 NKAEAAQKDGRFKDEIVPFIVKGRKGDITVDADEYIRHGATLDSMAKLRPAFDKEGTVTA 240
Query: 243 GNSSGINDGASIIILCSTKKAQTLGLKAMATIKGFGLGGCSPDIMGICPSIAIKNNLKNV 302
GN+SG+NDGA+ +L S +A G++ + I + G P +MG P A + L+
Sbjct: 241 GNASGLNDGAAAALLMSEAEASRRGIQPLGRIVSWATVGVDPKVMGTGPIPASRKALERA 300
Query: 303 KMNLNDIHLFELNEAFAAQSLAVLKELELNPNIVNVNGGAIAIGHPIGASGARILVTLLH 362
+ D+ L E NEAFAAQ+ AV K+L +P+IVNVNGGAIAIGHPIGASGARIL TLL
Sbjct: 301 GWKIGDLDLVEANEAFAAQACAVNKDLGWDPSIVNVNGGAIAIGHPIGASGARILNTLLF 360
Query: 363 EMKRSGHGVGCASLCVGGGQGLSVVVE 389
EMKR G G A+LC+GGG G+++ +E
Sbjct: 361 EMKRRGARKGLATLCIGGGMGVAMCIE 387
>pdb|1QFL|A Chain A, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With A Reaction Intermediate.
pdb|1QFL|B Chain B, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With A Reaction Intermediate.
pdb|1QFL|C Chain C, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With A Reaction Intermediate.
pdb|1QFL|D Chain D, Biosynthetic Thiolase From Zoogloea Ramigera In Complex
With A Reaction Intermediate.
pdb|1DM3|A Chain A, Acetylated Biosynthetic Thiolase From Zoogloea Ramigera In
Complex With Acetyl-Coa
pdb|1DM3|B Chain B, Acetylated Biosynthetic Thiolase From Zoogloea Ramigera In
Complex With Acetyl-Coa
pdb|1DM3|C Chain C, Acetylated Biosynthetic Thiolase From Zoogloea Ramigera In
Complex With Acetyl-Coa
pdb|1DM3|D Chain D, Acetylated Biosynthetic Thiolase From Zoogloea Ramigera In
Complex With Acetyl-Coa
Length = 389
Score = 351 bits (901), Expect = 7e-98
Identities = 185/387 (47%), Positives = 259/387 (66%), Gaps = 2/387 (0%)
Query: 4 VVVVAAKRSAVGSFLGSLKSVGAREMGVSVLKDALNASGLKPSDVDSVILGNVLGAGLGQ 63
+V+ +A R+AVGSF G+ + A E+G +V+ L +G+ +V+ VILG VL AG GQ
Sbjct: 2 IVIASAARTAVGSFNGAFANTPAHELGATVISAVLERAGVAAGEVNEVILGQVLPAGEGQ 61
Query: 64 NIARQIQLDAGIPNDKNAFSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGGVENMSAAPY 123
N ARQ + AG+P + A+ +N + GS ++A+ L I G ++V GG+E+MS AP+
Sbjct: 62 NPARQAAMKAGVPQEATAWGMNQLXGSGLRAVALGMQQIATGDASIIVAGGMESMSMAPH 121
Query: 124 LSFDMRDGKRMGNANMIDSMIHDGLWDAFNNYHMGITADNVAQAYHISREDQDNFALQSQ 183
+ +R G +MG+ MID+MI DGL DAF YHMG TA+NVA+ + +SR++QD FA+ SQ
Sbjct: 122 CAH-LRGGVKMGDFKMIDTMIKDGLTDAFYGYHMGTTAENVAKQWQLSRDEQDAFAVASQ 180
Query: 184 LKARAAINAGKFQEEITPIEIANKKGVVVFKEDEYPRE-TTLESLAKLKPAFKKDGSVTA 242
KA AA G+F++EI P + +KG + DEY R TL+S+AKL+PAF K+G+VTA
Sbjct: 181 NKAEAAQKDGRFKDEIVPFIVKGRKGDITVDADEYIRHGATLDSMAKLRPAFDKEGTVTA 240
Query: 243 GNSSGINDGASIIILCSTKKAQTLGLKAMATIKGFGLGGCSPDIMGICPSIAIKNNLKNV 302
GN+SG+NDGA+ +L S +A G++ + I + G P +MG P A + L+
Sbjct: 241 GNASGLNDGAAAALLMSEAEASRRGIQPLGRIVSWATVGVDPKVMGTGPIPASRKALERA 300
Query: 303 KMNLNDIHLFELNEAFAAQSLAVLKELELNPNIVNVNGGAIAIGHPIGASGARILVTLLH 362
+ D+ L E NEAFAAQ+ AV K+L +P+IVNVNGGAIAIGHPIGASGARIL TLL
Sbjct: 301 GWKIGDLDLVEANEAFAAQACAVNKDLGWDPSIVNVNGGAIAIGHPIGASGARILNTLLF 360
Query: 363 EMKRSGHGVGCASLCVGGGQGLSVVVE 389
EMKR G G A+LC+GGG G+++ +E
Sbjct: 361 EMKRRGARKGLATLCIGGGMGVAMCIE 387
>pdb|1PXT|B Chain B, Peroxisomal 3-Ketoacyl-Coa Thiolase (E.C.2.3.1.16)
pdb|1PXT|A Chain A, Peroxisomal 3-Ketoacyl-Coa Thiolase (E.C.2.3.1.16)
Length = 390
Score = 209 bits (531), Expect = 6e-55
Identities = 142/396 (35%), Positives = 214/396 (53%), Gaps = 28/396 (7%)
Query: 3 EVVVVAAKRSAVGS-FLGSLKSVGAREMGVSVLKDALNASGLKPSD-------VDSVILG 54
+VV+VAA RSA+G F G+ K V + + L + + G P ++ V G
Sbjct: 8 DVVIVAANRSAIGKGFKGAFKDVNTDYLLYNFLNEFI---GRFPEPLRADLNLIEEVACG 64
Query: 55 NVLGAGLGQNIARQIQLDAGIPNDKNAFSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGG 114
NVL G G R L +GIP ++N C S + A+ + I +G+ ++ + G
Sbjct: 65 NVLNVGAGATEHRAACLASGIPYSTPFVALNRQCSSGLTAVNDIANKIKVGQIDIGLALG 124
Query: 115 VENMSAAPYLSFDMRDGKRMGNANMIDSMIHDGLWDAFNNY-HMGITADNVAQAYHISRE 173
VE+M+ + K + MI S +A MGIT +NVA + ISR+
Sbjct: 125 VESMT---------NNYKNVNPLGMISSEELQKNREAKKCLIPMGITNENVAANFKISRK 175
Query: 174 DQDNFALQSQLKARAAINAGKFQEEITPIEIANKKGVVVFKEDEYPR-ETTLESLAKLKP 232
DQD FA S KA A N G F++EI PI++ + + + DE PR T ESL+ ++P
Sbjct: 176 DQDEFAANSYQKAYKAKNEGLFEDEILPIKLPDGS---ICQSDEGPRPNVTAESLSSIRP 232
Query: 233 AFKKD-GSVTAGNSSGINDGASIIILCSTKKAQTLGLKAMATIKGFGLGGCSPDIMGICP 291
AF KD G+ TAGN+S ++DG + ++L A L L + F G P+IMG+ P
Sbjct: 233 AFIKDRGTTTAGNASQVSDGVAGVLLARRSVANQLNLPVLGRYIDFQTVGVPPEIMGVGP 292
Query: 292 SIAIKNNLKNVKMNLNDIHLFELNEAFAAQSLAVLKELELNPNIVNVNGGAIAIGHPIGA 351
+ AI L+ + + DI +FE+NEAFAAQ+L + +L ++ N VN GGAIA+GHP+G
Sbjct: 293 AYAIPKVLEATGLQVQDIDIFEINEAFAAQALYCIHKLGIDLNKVNPRGGAIALGHPLGC 352
Query: 352 SGARILVTLLHEMKRSGHGVGCASLCVGGGQGLSVV 387
+GAR + T+L E+K+ +G S+C+G G G + +
Sbjct: 353 TGARQVATILRELKKD--QIGVVSMCIGTGMGAAAI 386
>pdb|1AFW|B Chain B, The 1.8 Angstrom Crystal Structure Of The Dimeric
Peroxisomal Thiolase Of Saccharomyces Cerevisiae
pdb|1AFW|A Chain A, The 1.8 Angstrom Crystal Structure Of The Dimeric
Peroxisomal Thiolase Of Saccharomyces Cerevisiae
Length = 393
Score = 209 bits (531), Expect = 6e-55
Identities = 142/396 (35%), Positives = 214/396 (53%), Gaps = 28/396 (7%)
Query: 3 EVVVVAAKRSAVGS-FLGSLKSVGAREMGVSVLKDALNASGLKPSD-------VDSVILG 54
+VV+VAA RSA+G F G+ K V + + L + + G P ++ V G
Sbjct: 11 DVVIVAANRSAIGKGFKGAFKDVNTDYLLYNFLNEFI---GRFPEPLRADLNLIEEVACG 67
Query: 55 NVLGAGLGQNIARQIQLDAGIPNDKNAFSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGG 114
NVL G G R L +GIP ++N C S + A+ + I +G+ ++ + G
Sbjct: 68 NVLNVGAGATEHRAACLASGIPYSTPFVALNRQCSSGLTAVNDIANKIKVGQIDIGLALG 127
Query: 115 VENMSAAPYLSFDMRDGKRMGNANMIDSMIHDGLWDAFNNY-HMGITADNVAQAYHISRE 173
VE+M+ + K + MI S +A MGIT +NVA + ISR+
Sbjct: 128 VESMT---------NNYKNVNPLGMISSEELQKNREAKKCLIPMGITNENVAANFKISRK 178
Query: 174 DQDNFALQSQLKARAAINAGKFQEEITPIEIANKKGVVVFKEDEYPR-ETTLESLAKLKP 232
DQD FA S KA A N G F++EI PI++ + + + DE PR T ESL+ ++P
Sbjct: 179 DQDEFAANSYQKAYKAKNEGLFEDEILPIKLPDGS---ICQSDEGPRPNVTAESLSSIRP 235
Query: 233 AFKKD-GSVTAGNSSGINDGASIIILCSTKKAQTLGLKAMATIKGFGLGGCSPDIMGICP 291
AF KD G+ TAGN+S ++DG + ++L A L L + F G P+IMG+ P
Sbjct: 236 AFIKDRGTTTAGNASQVSDGVAGVLLARRSVANQLNLPVLGRYIDFQTVGVPPEIMGVGP 295
Query: 292 SIAIKNNLKNVKMNLNDIHLFELNEAFAAQSLAVLKELELNPNIVNVNGGAIAIGHPIGA 351
+ AI L+ + + DI +FE+NEAFAAQ+L + +L ++ N VN GGAIA+GHP+G
Sbjct: 296 AYAIPKVLEATGLQVQDIDIFEINEAFAAQALYCIHKLGIDLNKVNPRGGAIALGHPLGC 355
Query: 352 SGARILVTLLHEMKRSGHGVGCASLCVGGGQGLSVV 387
+GAR + T+L E+K+ +G S+C+G G G + +
Sbjct: 356 TGARQVATILRELKKD--QIGVVSMCIGTGMGAAAI 389
>pdb|1KAS| Beta-Ketoacyl-Acp Synthase Ii From Escherichia Coli
pdb|1B3N|A Chain A, Beta-Ketoacyl Carrier Protein Synthase As A Drug Target,
Implications From The Crystal Structure Of A Complex
With The Inhibitor Cerulenin
Length = 412
Score = 32.7 bits (73), Expect = 0.072
Identities = 30/117 (25%), Positives = 51/117 (42%), Gaps = 10/117 (8%)
Query: 248 INDGASIIILCSTKKAQTLGLKAMATIKGFGLGG-----CSPDIMGICPSIAIKNNLKNV 302
+ DGA +++L + A+ G K A + GFG+ SP G ++A+ N L++
Sbjct: 231 LGDGAGMLVLEEYEHAKKRGAKIYAELVGFGMSSDAYHMTSPPENGAGAALAMANALRDA 290
Query: 303 KMNLNDI-----HLFELNEAFAAQSLAVLKELELNPNIVNVNGGAIAIGHPIGASGA 354
+ + I H A++ AV + V V+ GH +GA+GA
Sbjct: 291 GIEASQIGYVNAHGTSTPAGDKAEAQAVKTIFGEAASRVLVSSTKSMTGHLLGAAGA 347
>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 = 29.3 bits (64), Expect = 0.80
Identities = 14/46 (30%), Positives = 23/46 (49%)
Query: 82 FSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGGVENMSAAPYLSFD 127
+S++ C +S I A + I LG+ ++V GG E + FD
Sbjct: 157 YSISSACATSAHCIGNAVEQIQLGKQDIVFAGGGEELCWEMACEFD 202
>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 = 29.3 bits (64), Expect = 0.80
Identities = 14/46 (30%), Positives = 23/46 (49%)
Query: 82 FSVNMVCGSSMKAIQLAHDSIMLGRDEMVVCGGVENMSAAPYLSFD 127
+S++ C +S I A + I LG+ ++V GG E + FD
Sbjct: 157 YSISSACATSAHCIGNAVEQIQLGKQDIVFAGGGEELCWEMACEFD 202
>pdb|1DKG|D Chain D, Crystal Structure Of The Nucleotide Exchange Factor Grpe
Bound To The Atpase Domain Of The Molecular Chaperone
Dnak
Length = 383
Score = 26.2 bits (56), Expect = 6.8
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 31 VSVLKDALNASGLKPSDVDSVIL 53
+ +LK AL +GL SD+D VIL
Sbjct: 317 IELLKVALQDAGLSVSDIDDVIL 339
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
0.317 0.134 0.376
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,089,207
Number of Sequences: 13198
Number of extensions: 84020
Number of successful extensions: 246
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 222
Number of HSP's gapped (non-prelim): 10
length of query: 391
length of database: 2,899,336
effective HSP length: 90
effective length of query: 301
effective length of database: 1,711,516
effective search space: 515166316
effective search space used: 515166316
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)