Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP27302
DateThu Jan 5 11:43:48 GMT 2012
Unique Job IDd3c27d20a61a6ac3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2r8pA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate
Confidence and coverage
Confidence:100.0% Coverage:100%
662 residues (100% 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  MSSRKELANAIRALSMDAVQKAKSGHPGAPMGMADIAEVLWRDFLKHNPQNPSWADRDRF
Secondary structure 
























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Disorder  ?



















?

?
?























?







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   .........70.........80.........90.........100.........110.........120
Sequence  VLSNGHGSMLIYSLLHLTGYDLPMEELKNFRQLHSKTPGHPEVGYTAGVETTTGPLGQGI
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??


















??


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   .........130.........140.........150.........160.........170.........180
Sequence  ANAVGMAIAEKTLAAQFNRPGHDIVDHYTYAFMGDGCMMEGISHEVCSLAGTLKLGKLIA
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Disorder 












?????????














?





















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   .........190.........200.........210.........220.........230.........240
Sequence  FYDDNGISIDGHVEGWFTDDTAMRFEAYGWHVIRDIDGHDAASIKRAVEEARAVTDKPSL
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?





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   .........250.........260.........270.........280.........290.........300
Sequence  LMCKTIIGFGSPNKAGTHDSHGAPLGDAEIALTREQLGWKYAPFEIPSEIYAQWDAKEAG
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Disorder 






?


?
??
??????



?




























???
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   .........310.........320.........330.........340.........350.........360
Sequence  QAKESAWNEKFAAYAKAYPQEAAEFTRRMKGEMPSDFDAKAKEFIAKLQANPAKIASRKA
Secondary structure 































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Disorder  ???











??
?


























?????????




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   .........370.........380.........390.........400.........410.........420
Sequence  SQNAIEAFGPLLPEFLGGSADLAPSNLTLWSGSKAINEDAAGNYIHYGVREFGMTAIANG
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????????
?

























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   .........430.........440.........450.........460.........470.........480
Sequence  ISLHGGFLPYTSTFLMFVEYARNAVRMAALMKQRQVMVYTHDSIGLGEDGPTHQPVEQVA
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?

















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   .........490.........500.........510.........520.........530.........540
Sequence  SLRVTPNMSTWRPCDQVESAVAWKYGVERQDGPTALILSRQNLAQQERTEEQLANIARGG
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??

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   .........550.........560.........570.........580.........590.........600
Sequence  YVLKDCAGQPELIFIATGSEVELAVAAYEKLTAEGVKARVVSMPSTDAFDKQDAAYRESV
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   .........610.........620.........630.........640.........650.........660
Sequence  LPKAVTARVAVEAGIADYWYKYVGLNGAIVGMTTFGESAPAELLFEEFGFTVDNVVAKAK
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   ...
Sequence  ELL
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 2r8p chain A

3D model

Region: 2 - 663
Aligned: 662
Modelled: 662
Confidence: 100.0%
Identity: 100%
PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate

Phyre2

PDB 3hyl chain B

3D model

Region: 3 - 663
Aligned: 656
Modelled: 661
Confidence: 100.0%
Identity: 50%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis

Phyre2

PDB 1itz chain C

3D model

Region: 3 - 662
Aligned: 655
Modelled: 660
Confidence: 100.0%
Identity: 49%
PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp

Phyre2

PDB 3uk1 chain A

3D model

Region: 2 - 663
Aligned: 638
Modelled: 642
Confidence: 100.0%
Identity: 63%
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

Phyre2

PDB 1r9j chain B

3D model

Region: 1 - 663
Aligned: 644
Modelled: 661
Confidence: 100.0%
Identity: 48%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana

Phyre2

PDB 3kom chain B

3D model

Region: 2 - 663
Aligned: 643
Modelled: 662
Confidence: 100.0%
Identity: 53%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis

Phyre2

PDB 2e6k chain B

3D model

Region: 2 - 663
Aligned: 642
Modelled: 662
Confidence: 100.0%
Identity: 48%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505

Phyre2

PDB 1tkc chain A

3D model

Region: 1 - 663
Aligned: 646
Modelled: 661
Confidence: 100.0%
Identity: 47%
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

Phyre2

PDB 3m7i chain A

3D model

Region: 1 - 661
Aligned: 626
Modelled: 637
Confidence: 100.0%
Identity: 45%
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

Phyre2

PDB 3mos chain A

3D model

Region: 1 - 660
Aligned: 599
Modelled: 621
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase

Phyre2

PDB 2g28 chain A

3D model

Region: 1 - 663
Aligned: 629
Modelled: 653
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex

Phyre2

PDB 2o1x chain A

3D model

Region: 1 - 663
Aligned: 542
Modelled: 566
Confidence: 100.0%
Identity: 23%
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

Phyre2

PDB 2o1s chain C

3D model

Region: 1 - 663
Aligned: 504
Modelled: 526
Confidence: 100.0%
Identity: 24%
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

Phyre2

PDB 3ahh chain A

3D model

Region: 1 - 663
Aligned: 630
Modelled: 645
Confidence: 100.0%
Identity: 18%
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

Phyre2

PDB 2r8o chain A domain 2

3D model

Region: 2 - 332
Aligned: 331
Modelled: 331
Confidence: 100.0%
Identity: 100%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2

PDB 1r9j chain A domain 2

3D model

Region: 1 - 334
Aligned: 333
Modelled: 334
Confidence: 100.0%
Identity: 52%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2

PDB 1itz chain A domain 1

3D model

Region: 2 - 332
Aligned: 330
Modelled: 331
Confidence: 100.0%
Identity: 56%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2

PDB 1gpu chain A domain 1

3D model

Region: 1 - 332
Aligned: 329
Modelled: 332
Confidence: 100.0%
Identity: 52%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2

PDB 2iea chain A domain 2

3D model

Region: 1 - 326
Aligned: 304
Modelled: 315
Confidence: 100.0%
Identity: 28%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2

PDB 1ols chain B

3D model

Region: 344 - 663
Aligned: 309
Modelled: 320
Confidence: 100.0%
Identity: 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

Phyre2
1

c2r8pA_
2

c3hylB_
3

c1itzC_
4

c3uk1A_
5

c1r9jB_
6

c3komB_
7

c2e6kB_
8

c1tkcA_
9

c3m7iA_
10

c3mosA_
11

c2g28A_
12

c2o1xA_
13

c2o1sC_
14

c3ahhA_
15

d2r8oa2
16

d1r9ja2
17

d1itza1
18

d1gpua1
19

d2ieaa2
20

c1olsB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2r8pA_



100.0 100 PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate
2c3hylB_



100.0 50 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis
3c1itzC_



100.0 49 PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp
4c3uk1A_



100.0 63 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
5c1r9jB_



100.0 48 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana
6c3komB_



100.0 53 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis
7c2e6kB_



100.0 48 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505
8c1tkcA_



100.0 47 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
9c3m7iA_



100.0 45 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
10c3mosA_



100.0 27 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase
11c2g28A_



100.0 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex
12c2o1xA_



100.0 23 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
13c2o1sC_



100.0 24 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
14c3ahhA_



100.0 18 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
15d2r8oa2



100.0 100 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
16d1r9ja2



100.0 52 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
17d1itza1



100.0 56 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
18d1gpua1



100.0 52 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
19d2ieaa2



100.0 28 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
20c1olsB_



100.0 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
21c1ni4D_



not modelled 100.0 15 PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase
22c1um9D_



not modelled 100.0 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
23c3dufD_



not modelled 100.0 16 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
24c2bp7F_



not modelled 100.0 14 PDB header:oxidoreductase
Chain: F: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: new crystal form of the pseudomonas putida branched-chain2 dehydrogenase (e1)
25c1ik6A_



not modelled 100.0 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase;
PDBTitle: 3d structure of the e1beta subunit of pyruvate2 dehydrogenase from the archeon pyrobaculum aerophilum
26d2r8oa1



not modelled 100.0 100 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
27d1itza2



not modelled 100.0 43 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
28d1gpua2



not modelled 100.0 46 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
29d1r9ja1



not modelled 100.0 50 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
30c2yicC_



not modelled 100.0 13 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)
31c2xt6B_



not modelled 100.0 12 PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)
32c2jgdA_



not modelled 100.0 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-oxoglutarate dehydrogenase e1 component;
PDBTitle: e. coli 2-oxoglutarate dehydrogenase (e1o)
33d1umdb1



not modelled 100.0 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
34d2ieaa1



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
35d1w85b1



not modelled 100.0 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
36d2ozlb1



not modelled 100.0 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
37d1qs0b1



not modelled 100.0 11 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
38d2bfdb1



not modelled 100.0 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
39d1w85a_



not modelled 100.0 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
40d1umda_



not modelled 100.0 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
41d2ozla1



not modelled 100.0 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
42d1qs0a_



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
43d2bfda1



not modelled 100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
44d1ik6a1



not modelled 100.0 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
45d2r8oa3



not modelled 100.0 100 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
46d1itza3



not modelled 99.9 38 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
47d1r9ja3



not modelled 99.9 36 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
48d1gpua3



not modelled 99.9 38 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
49d1w85b2



not modelled 99.9 20 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
50d2ozlb2



not modelled 99.9 15 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
51d1umdb2



not modelled 99.9 17 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
52d2bfdb2



not modelled 99.8 11 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
53d2ieaa3



not modelled 99.8 22 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
54d1qs0b2



not modelled 99.8 19 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
55d1ik6a2



not modelled 99.7 12 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
56d1t9ba3



not modelled 99.5 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
57d2djia3



not modelled 99.5 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
58c3ju3A_



not modelled 99.5 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 2-oxoacid ferredoxin oxidoreductase, alpha chain;
PDBTitle: crystal structure of alpha chain of probable 2-oxoacid ferredoxin2 oxidoreductase from thermoplasma acidophilum
59d1q6za3



not modelled 99.5 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
60c2djiA_



not modelled 99.5 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
61d1jsca3



not modelled 99.4 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
62d2ihta3



not modelled 99.4 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
63d2ji7a3



not modelled 99.4 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
64c2c3yA_



not modelled 99.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate-ferredoxin oxidoreductase;
PDBTitle: crystal structure of the radical form of2 pyruvate:ferredoxin oxidoreductase from desulfovibrio3 africanus
65d1ybha3



not modelled 99.4 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
66d2ez9a3



not modelled 99.3 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
67d1ozha3



not modelled 99.3 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
68c1powA_



not modelled 99.3 14 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
69c1t9dB_



not modelled 99.3 17 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
70d1pvda3



not modelled 99.3 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
71c2pgnA_



not modelled 99.3 20 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
72c2v3wC_



not modelled 99.2 18 PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida
73c2q27B_



not modelled 99.2 15 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
74c2nxwB_



not modelled 99.2 15 PDB header:lyase
Chain: B: PDB Molecule:phenyl-3-pyruvate decarboxylase;
PDBTitle: crystal structure of phenylpyruvate decarboxylase of azospirillum2 brasilense
75c2vbgB_



not modelled 99.2 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
76c1jscA_



not modelled 99.2 20 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
77c2panF_



not modelled 99.2 20 PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase
78c2vbiF_



not modelled 99.2 25 PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus
79c3eyaE_



not modelled 99.2 22 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
80c2ag1A_



not modelled 99.2 19 PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet
81c1upaC_



not modelled 99.2 22 PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)
82c2w93A_



not modelled 99.2 15 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
83d1ovma3



not modelled 99.2 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
84c1yi1A_



not modelled 99.2 20 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
85c1zpdA_



not modelled 99.1 28 PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis
86d1zpda3



not modelled 99.1 25 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
87c2ji6B_



not modelled 99.1 19 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
88c1ozhD_



not modelled 99.1 20 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.
89c3lq1A_



not modelled 99.0 13 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
90c1ovmC_



not modelled 99.0 16 PDB header:lyase
Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase;
PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae
91c2x7jA_



not modelled 99.0 16 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
92c2jlaD_



not modelled 99.0 13 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
93d2c42a3



not modelled 98.8 17 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Pyruvate-ferredoxin oxidoreductase, PFOR, domain II
94d2c42a1



not modelled 97.9 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR Pyr module
95d2c42a2



not modelled 97.8 25 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR PP module
96d1q6za2



not modelled 97.4 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
97d2djia2



not modelled 97.3 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
98d2ez9a2



not modelled 97.2 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
99d1pvda2



not modelled 97.1 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
100d2ihta2



not modelled 96.7 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
101d1t9ba2



not modelled 96.6 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
102d1ozha2



not modelled 96.5 11 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
103d1zpda2



not modelled 96.4 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
104d1ybha2



not modelled 96.1 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
105d2ji7a2



not modelled 96.1 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
106d1ovma2



not modelled 95.4 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
107c1yd7A_



not modelled 95.1 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-keto acid:ferredoxin oxidoreductase subunit
PDBTitle: conserved hypothetical protein pfu-1647980-001 from2 pyrococcus furiosus
108d1wu7a1



not modelled 82.8 14 Fold:Anticodon-binding domain-like
Superfamily:Class II aaRS ABD-related
Family:Anticodon-binding domain of Class II aaRS
109c2zkiH_



not modelled 76.4 16 PDB header:transcription
Chain: H: PDB Molecule:199aa long hypothetical trp repressor binding
PDBTitle: crystal structure of hypothetical trp repressor binding2 protein from sul folobus tokodaii (st0872)
110d2a5la1



not modelled 75.1 14 Fold:Flavodoxin-like
Superfamily:Flavoproteins
Family:WrbA-like
111d1fx0a3



not modelled 72.7 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
112c2zbwA_



not modelled 68.5 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of thioredoxin reductase-like protein from thermus2 thermophilus hb8
113d1djqa3



not modelled 68.1 11 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:N-terminal domain of adrenodoxin reductase-like
114d1vmea1



not modelled 66.8 13 Fold:Flavodoxin-like
Superfamily:Flavoproteins
Family:Flavodoxin-related
115d1trba1



not modelled 66.1 9 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
116c2qe7C_



not modelled 65.5 14 PDB header:hydrolase
Chain: C: PDB Molecule:atp synthase subunit alpha;
PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1
117d1dxla1



not modelled 65.0 18 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
118d1skyb3



not modelled 64.3 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
119d1jnra2



not modelled 62.0 25 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
120c2q7vA_



not modelled 61.5 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of deinococcus radiodurans thioredoxin2 reductase

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