Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AFI0
DateThu Jan 5 11:26:22 GMT 2012
Unique Job ID84365d4845ea2e64

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2q27B_
Top template information
PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
Confidence and coverage
Confidence:100.0% Coverage: 97%
545 residues ( 97% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSDQLQMTDGMHIIVEALKQNNIDTIYGVVGIPVTDMARHAQAEGIRYIGFRHEQSAGYA
Secondary structure 






















SS confidence 



























































Disorder  ????????



















































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   .........70.........80.........90.........100.........110.........120
Sequence  AAASGFLTQKPGICLTVSAPGFLNGLTALANATVNGFPMIMISGSSDRAIVDLQQGDYEE
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Disorder 













































?????????




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   .........130.........140.........150.........160.........170.........180
Sequence  LDQMNAAKPYAKAAFRVNQPQDLGIALARAIRVSVSGRPGGVYLDLPANVLAATMEKDEA
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?
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   .........190.........200.........210.........220.........230.........240
Sequence  LTTIVKVENPSPALLPCPKSVTSAISLLAKAERPLIILGKGAAYSQADEQLREFIESAQI
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Disorder 




????????
?












































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   .........250.........260.........270.........280.........290.........300
Sequence  PFLPMSMAKGILEDTHPLSAAAARSFALANADVVMLVGARLNWLLAHGKKGWAADTQFIQ
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   .........310.........320.........330.........340.........350.........360
Sequence  LDIEPQEIDSNRPIAVPVVGDIASSMQGMLAELKQNTFTTPLVWRDILNIHKQQNAQKMH
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Disorder 


































?????



















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   .........370.........380.........390.........400.........410.........420
Sequence  EKLSTDTQPLNYFNALSAVRDVLRENQDIYLVNEGANTLDNARNIIDMYKPRRRLDCGTW
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Disorder 
???????



















































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   .........430.........440.........450.........460.........470.........480
Sequence  GVMGIGMGYAIGASVTSGSPVVAIEGDSAFGFSGMEIETICRYNLPVTIVIFNNGGIYRG
Secondary structure 

















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   .........490.........500.........510.........520.........530.........540
Sequence  DGVDLSGAGAPSPTDLLHHARYDKLMDAFRGVGYNVTTTDELRHALTTGIQSRKPTIINV
Secondary structure 






















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Disorder 




???????















































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   .........550.........560....
Sequence  VIDPAAGTESGHITKLNPKQVAGN
Secondary structure 










SS confidence 























Disorder 




???????


?
???????
Disorder confidence 























 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 2q27 chain B

3D model

Region: 5 - 549
Aligned: 545
Modelled: 545
Confidence: 100.0%
Identity: 100%
PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli

Phyre2

PDB 2ji6 chain B

3D model

Region: 5 - 557
Aligned: 550
Modelled: 553
Confidence: 100.0%
Identity: 55%
PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: x-ray structure of oxalyl-coa decarboxylase in complex with2 3-deaza-thdp and oxalyl-coa

Phyre2

PDB 2pgn chain A

3D model

Region: 6 - 559
Aligned: 546
Modelled: 552
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:cyclohexane-1,2-dione hydrolase (cdh);
PDBTitle: the crystal structure of fad and thdp-dependent cyclohexane-1,2-dione2 hydrolase in complex with cyclohexane-1,2-dione

Phyre2

PDB 1pow chain A

3D model

Region: 8 - 551
Aligned: 531
Modelled: 544
Confidence: 100.0%
Identity: 22%
PDB header:oxidoreductase(oxygen as acceptor)
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: the refined structures of a stabilized mutant and of wild-type2 pyruvate oxidase from lactobacillus plantarum

Phyre2

PDB 1yi1 chain A

3D model

Region: 8 - 564
Aligned: 550
Modelled: 557
Confidence: 100.0%
Identity: 22%
PDB header:transferase
Chain: A: PDB Molecule:acetolactate synthase;
PDBTitle: crystal structure of arabidopsis thaliana acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, tribenuron methyl

Phyre2

PDB 2dji chain A

3D model

Region: 8 - 561
Aligned: 539
Modelled: 554
Confidence: 100.0%
Identity: 19%
PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad

Phyre2

PDB 2pan chain F

3D model

Region: 8 - 552
Aligned: 537
Modelled: 541
Confidence: 100.0%
Identity: 23%
PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase

Phyre2

PDB 1ozh chain D

3D model

Region: 6 - 556
Aligned: 527
Modelled: 545
Confidence: 100.0%
Identity: 22%
PDB header:lyase
Chain: D: PDB Molecule:acetolactate synthase, catabolic;
PDBTitle: the crystal structure of klebsiella pneumoniae acetolactate2 synthase with enzyme-bound cofactor and with an unusual3 intermediate.

Phyre2

PDB 1t9d chain B

3D model

Region: 4 - 563
Aligned: 539
Modelled: 543
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: B: PDB Molecule:acetolactate synthase, mitochondrial;
PDBTitle: crystal structure of yeast acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, metsulfuron methyl

Phyre2

PDB 2ag1 chain A

3D model

Region: 8 - 553
Aligned: 540
Modelled: 537
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet

Phyre2

PDB 1jsc chain A

3D model

Region: 1 - 545
Aligned: 519
Modelled: 529
Confidence: 100.0%
Identity: 24%
PDB header:lyase
Chain: A: PDB Molecule:acetohydroxy-acid synthase;
PDBTitle: crystal structure of the catalytic subunit of yeast2 acetohydroxyacid synthase: a target for herbicidal3 inhibitors

Phyre2

PDB 3eya chain E

3D model

Region: 5 - 551
Aligned: 513
Modelled: 528
Confidence: 100.0%
Identity: 23%
PDB header:oxidoreductase
Chain: E: PDB Molecule:pyruvate dehydrogenase [cytochrome];
PDBTitle: structural basis for membrane binding and catalytic2 activation of the peripheral membrane enzyme pyruvate3 oxidase from escherichia coli

Phyre2

PDB 2x7j chain A

3D model

Region: 1 - 546
Aligned: 535
Modelled: 546
Confidence: 100.0%
Identity: 15%
PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: structure of the menaquinone biosynthesis protein mend from2 bacillus subtilis

Phyre2

PDB 1upa chain C

3D model

Region: 8 - 545
Aligned: 532
Modelled: 537
Confidence: 100.0%
Identity: 21%
PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)

Phyre2

PDB 2v3w chain C

3D model

Region: 8 - 544
Aligned: 515
Modelled: 523
Confidence: 100.0%
Identity: 22%
PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida

Phyre2

PDB 1zpd chain A

3D model

Region: 8 - 550
Aligned: 519
Modelled: 543
Confidence: 100.0%
Identity: 18%
PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis

Phyre2

PDB 2vbi chain F

3D model

Region: 8 - 549
Aligned: 514
Modelled: 539
Confidence: 100.0%
Identity: 18%
PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus

Phyre2

PDB 3lq1 chain A

3D model

Region: 2 - 541
Aligned: 496
Modelled: 513
Confidence: 100.0%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-
PDBTitle: crystal structure of 2-succinyl-6-hydroxy-2,4-cyclohexadiene2 1-carboxylic acid synthase/2-oxoglutarate decarboxylase3 from listeria monocytogenes str. 4b f2365

Phyre2

PDB 2jla chain D

3D model

Region: 9 - 546
Aligned: 521
Modelled: 527
Confidence: 100.0%
Identity: 14%
PDB header:transferase
Chain: D: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: crystal structure of e.coli mend, 2-succinyl-5-enolpyruvyl-2 6-hydroxy-3-cyclohexadiene-1-carboxylate synthase - semet3 protein

Phyre2

PDB 2vbg chain B

3D model

Region: 6 - 564
Aligned: 517
Modelled: 538
Confidence: 100.0%
Identity: 18%
PDB header:lyase
Chain: B: PDB Molecule:branched-chain alpha-ketoacid decarboxylase;
PDBTitle: the complex structure of the branched-chain keto acid2 decarboxylase (kdca) from lactococcus lactis with 2r-1-3 hydroxyethyl-deazathdp

Phyre2
1

c2q27B_
2

c2ji6B_
3

c2pgnA_
4

c1powA_
5

c1yi1A_
6

c2djiA_
7

c2panF_
8

c1ozhD_
9

c1t9dB_
10

c2ag1A_
11

c1jscA_
12

c3eyaE_
13

c2x7jA_
14

c1upaC_
15

c2v3wC_
16

c1zpdA_
17

c2vbiF_
18

c3lq1A_
19

c2jlaD_
20

c2vbgB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2q27B_



100.0 100 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
2c2ji6B_



100.0 55 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: x-ray structure of oxalyl-coa decarboxylase in complex with2 3-deaza-thdp and oxalyl-coa
3c2pgnA_



100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:cyclohexane-1,2-dione hydrolase (cdh);
PDBTitle: the crystal structure of fad and thdp-dependent cyclohexane-1,2-dione2 hydrolase in complex with cyclohexane-1,2-dione
4c1powA_



100.0 22 PDB header:oxidoreductase(oxygen as acceptor)
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: the refined structures of a stabilized mutant and of wild-type2 pyruvate oxidase from lactobacillus plantarum
5c1yi1A_



100.0 22 PDB header:transferase
Chain: A: PDB Molecule:acetolactate synthase;
PDBTitle: crystal structure of arabidopsis thaliana acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, tribenuron methyl
6c2djiA_



100.0 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
7c2panF_



100.0 23 PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase
8c1ozhD_



100.0 22 PDB header:lyase
Chain: D: PDB Molecule:acetolactate synthase, catabolic;
PDBTitle: the crystal structure of klebsiella pneumoniae acetolactate2 synthase with enzyme-bound cofactor and with an unusual3 intermediate.
9c1t9dB_



100.0 23 PDB header:transferase
Chain: B: PDB Molecule:acetolactate synthase, mitochondrial;
PDBTitle: crystal structure of yeast acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, metsulfuron methyl
10c2ag1A_



100.0 25 PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet
11c1jscA_



100.0 24 PDB header:lyase
Chain: A: PDB Molecule:acetohydroxy-acid synthase;
PDBTitle: crystal structure of the catalytic subunit of yeast2 acetohydroxyacid synthase: a target for herbicidal3 inhibitors
12c3eyaE_



100.0 23 PDB header:oxidoreductase
Chain: E: PDB Molecule:pyruvate dehydrogenase [cytochrome];
PDBTitle: structural basis for membrane binding and catalytic2 activation of the peripheral membrane enzyme pyruvate3 oxidase from escherichia coli
13c2x7jA_



100.0 15 PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: structure of the menaquinone biosynthesis protein mend from2 bacillus subtilis
14c1upaC_



100.0 21 PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)
15c2v3wC_



100.0 22 PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida
16c1zpdA_



100.0 18 PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis
17c2vbiF_



100.0 18 PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus
18c3lq1A_



100.0 16 PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-
PDBTitle: crystal structure of 2-succinyl-6-hydroxy-2,4-cyclohexadiene2 1-carboxylic acid synthase/2-oxoglutarate decarboxylase3 from listeria monocytogenes str. 4b f2365
19c2jlaD_



100.0 14 PDB header:transferase
Chain: D: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: crystal structure of e.coli mend, 2-succinyl-5-enolpyruvyl-2 6-hydroxy-3-cyclohexadiene-1-carboxylate synthase - semet3 protein
20c2vbgB_



100.0 18 PDB header:lyase
Chain: B: PDB Molecule:branched-chain alpha-ketoacid decarboxylase;
PDBTitle: the complex structure of the branched-chain keto acid2 decarboxylase (kdca) from lactococcus lactis with 2r-1-3 hydroxyethyl-deazathdp
21c1ovmC_



not modelled 100.0 18 PDB header:lyase
Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase;
PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae
22c2w93A_



not modelled 100.0 19 PDB header:lyase
Chain: A: PDB Molecule:pyruvate decarboxylase isozyme 1;
PDBTitle: crystal structure of the saccharomyces cerevisiae pyruvate2 decarboxylase variant e477q in complex with the surrogate3 pyruvamide
23c2nxwB_



not modelled 100.0 18 PDB header:lyase
Chain: B: PDB Molecule:phenyl-3-pyruvate decarboxylase;
PDBTitle: crystal structure of phenylpyruvate decarboxylase of azospirillum2 brasilense
24d2ji7a2



not modelled 100.0 60 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
25d1ozha2



not modelled 100.0 27 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
26d1ybha2



not modelled 100.0 24 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
27d1q6za2



not modelled 100.0 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
28d2djia2



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
29d2ihta2



not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
30d1zpda2



not modelled 100.0 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
31d1t9ba2



not modelled 100.0 28 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
32d2ez9a3



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
33d1t9ba3



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
34d1pvda2



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
35d2djia3



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
36d2ez9a2



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
37d1ybha3



not modelled 100.0 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
38d2ji7a3



not modelled 100.0 58 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
39d1ovma2



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
40d1ozha3



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
41d1ovma3



not modelled 100.0 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
42d2ihta3



not modelled 100.0 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
43d1q6za3



not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
44d1zpda3



not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
45d1pvda3



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
46d1jsca3



not modelled 100.0 24 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
47d2ji7a1



not modelled 100.0 46 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
48d2ez9a1



not modelled 99.9 25 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
49d2djia1



not modelled 99.9 17 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
50d1t9ba1



not modelled 99.9 25 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
51d1ybha1



not modelled 99.9 24 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
52d2ihta1



not modelled 99.9 22 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
53d1ozha1



not modelled 99.9 20 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
54d1q6za1



not modelled 99.9 21 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
55d1zpda1



not modelled 99.9 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
56d1ovma1



not modelled 99.9 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
57d1pvda1



not modelled 99.8 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
58d2c42a1



not modelled 99.7 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR Pyr module
59c2c3yA_



not modelled 99.7 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate-ferredoxin oxidoreductase;
PDBTitle: crystal structure of the radical form of2 pyruvate:ferredoxin oxidoreductase from desulfovibrio3 africanus
60c3cf4G_



not modelled 99.6 15 PDB header:oxidoreductase
Chain: G: PDB Molecule:acetyl-coa decarboxylase/synthase epsilon subunit;
PDBTitle: structure of the codh component of the m. barkeri acds complex
61d2r8oa2



not modelled 99.5 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
62d1gpua1



not modelled 99.5 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
63d2bfda1



not modelled 99.5 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
64d1w85a_



not modelled 99.5 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
65d1itza1



not modelled 99.5 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
66d1r9ja2



not modelled 99.5 25 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
67d2ozla1



not modelled 99.4 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
68c1yd7A_



not modelled 99.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-keto acid:ferredoxin oxidoreductase subunit
PDBTitle: conserved hypothetical protein pfu-1647980-001 from2 pyrococcus furiosus
69d1umda_



not modelled 99.3 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
70c2o1sC_



not modelled 99.3 20 PDB header:transferase
Chain: C: PDB Molecule:1-deoxy-d-xylulose-5-phosphate synthase;
PDBTitle: 1-deoxy-d-xylulose 5-phosphate synthase (dxs) from2 escherichia coli
71c3uk1A_



not modelled 99.3 21 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: crystal structure of a transketolase from burkholderia thailandensis2 with an oxidized cysteinesulfonic acid in the active site
72c2e6kB_



not modelled 99.2 21 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505
73c2o1xA_



not modelled 99.2 20 PDB header:transferase
Chain: A: PDB Molecule:1-deoxy-d-xylulose-5-phosphate synthase;
PDBTitle: 1-deoxy-d-xylulose 5-phosphate synthase (dxs) from2 deinococcus radiodurans
74c3m7iA_



not modelled 99.2 22 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase in complex with thiamine2 diphosphate, ribose-5-phosphate(pyranose form) and3 magnesium ion
75c1tkcA_



not modelled 99.2 21 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: specificity of coenzyme binding in thiamin diphosphate2 dependent enzymes: crystal structures of yeast3 transketolase in complex with analogs of thiamin4 diphosphate
76c1r9jB_



not modelled 99.2 23 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana
77c1itzC_



not modelled 99.2 21 PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp
78c3hylB_



not modelled 99.2 18 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis
79d2c42a2



not modelled 99.2 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR PP module
80c2r8pA_



not modelled 99.2 16 PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate
81c3mosA_



not modelled 99.1 26 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase
82c3komB_



not modelled 99.1 17 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis
83d1qs0a_



not modelled 99.1 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
84c2g28A_



not modelled 99.0 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex
85d2ieaa2



not modelled 99.0 25 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
86c3ahhA_



not modelled 98.6 13 PDB header:lyase
Chain: A: PDB Molecule:xylulose 5-phosphate/fructose 6-phosphate phosphoketolase;
PDBTitle: h142a mutant of phosphoketolase from bifidobacterium breve complexed2 with acetyl thiamine diphosphate
87c1olsB_



not modelled 98.0 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: roles of his291-alpha and his146-beta' in the reductive2 acylation reaction catalyzed by human branched-chain3 alpha-ketoacid dehydrogenase
88c1efpC_



not modelled 98.0 13 PDB header:electron transport
Chain: C: PDB Molecule:protein (electron transfer flavoprotein);
PDBTitle: electron transfer flavoprotein (etf) from paracoccus2 denitrificans
89c2jgdA_



not modelled 97.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-oxoglutarate dehydrogenase e1 component;
PDBTitle: e. coli 2-oxoglutarate dehydrogenase (e1o)
90d1ytla1



not modelled 97.9 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:ACDE2-like
91c3k35D_



not modelled 97.9 20 PDB header:hydrolase
Chain: D: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: crystal structure of human sirt6
92d1efva2



not modelled 97.8 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
93d1gpua2



not modelled 97.8 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
94c3pkiF_



not modelled 97.7 20 PDB header:hydrolase
Chain: F: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: human sirt6 crystal structure in complex with adp ribose
95d2r8oa1



not modelled 97.7 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
96d1r9ja1



not modelled 97.7 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
97d1efpa2



not modelled 97.6 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
98d1ma3a_



not modelled 97.6 18 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
99d3clsd2



not modelled 97.6 18 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
100d1itza2



not modelled 97.5 9 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
101d1yc5a1



not modelled 97.4 18 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
102c2bp7F_



not modelled 97.4 13 PDB header:oxidoreductase
Chain: F: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: new crystal form of the pseudomonas putida branched-chain2 dehydrogenase (e1)
103d1m2ka_



not modelled 97.3 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
104d1qs0b1



not modelled 97.3 11 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
105c2yicC_



not modelled 97.3 14 PDB header:lyase
Chain: C: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of the suca domain of mycobacterium smegmatis2 alpha-ketoglutarate decarboxylase (triclinic form)
106c1um9D_



not modelled 97.1 15 PDB header:oxidoreductase
Chain: D: PDB Molecule:2-oxo acid dehydrogenase beta subunit;
PDBTitle: branched-chain 2-oxo acid dehydrogenase (e1) from thermus2 thermophilus hb8 in apo-form
107d1umdb1



not modelled 96.8 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
108d2ozlb1



not modelled 96.8 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
109d1w85b1



not modelled 96.7 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
110d1d4oa_



not modelled 96.7 16 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Transhydrogenase domain III (dIII)
111c1pt9B_



not modelled 96.6 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial;
PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue
112c3dufD_



not modelled 96.4 12 PDB header:oxidoreductase/transferase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component subunit beta;
PDBTitle: snapshots of catalysis in the e1 subunit of the pyruvate2 dehydrogenase multi-enzyme complex
113c2bruC_



not modelled 96.4 17 PDB header:oxidoreductase
Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta;
PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase
114c2hjhB_



not modelled 96.4 8 PDB header:hydrolase
Chain: B: PDB Molecule:nad-dependent histone deacetylase sir2;
PDBTitle: crystal structure of the sir2 deacetylase
115d1pnoa_



not modelled 96.3 17 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Transhydrogenase domain III (dIII)
116d1j8fa_



not modelled 96.3 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
117d2bfdb1



not modelled 96.3 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
118c2xt6B_



not modelled 96.0 21 PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)
119c3glsC_



not modelled 96.0 13 PDB header:hydrolase
Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3,
PDBTitle: crystal structure of human sirt3
120c1ni4D_



not modelled 96.0 11 PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0