Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP77488
DateThu Jan 5 12:29:48 GMT 2012
Unique Job IDe55d194a5b4b41d5

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2o1sC_
Top template information
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
Confidence and coverage
Confidence:100.0% Coverage: 86%
535 residues ( 86% 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  MSFDIAKYPTLALVDSTQELRLLPKESLPKLCDELRRYLLDSVSRSSGHFASGLGTVELT
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Disorder  ???????
?





































??










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   .........70.........80.........90.........100.........110.........120
Sequence  VALHYVYNTPFDQLIWDVGHQAYPHKILTGRRDKIGTIRQKGGLHPFPWRGESEYDVLSV
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   .........130.........140.........150.........160.........170.........180
Sequence  GHSSTSISAGIGIAVAAEKEGKNRRTVCVIGDGAITAGMAFEAMNHAGDIRPDMLVILND
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Disorder 

?
























































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   .........190.........200.........210.........220.........230.........240
Sequence  NEMSISENVGALNNHLAQLLSGKLYSSLREGGKKVFSGVPPIKELLKRTEEHIKGMVVPG
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   .........250.........260.........270.........280.........290.........300
Sequence  TLFEELGFNYIGPVDGHDVLGLITTLKNMRDLKGPQFLHIMTKKGRGYEPAEKDPITFHA
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   .........310.........320.........330.........340.........350.........360
Sequence  VPKFDPSSGCLPKSSGGLPSYSKIFGDWLCETAAKDNKLMAITPAMREGSGMVEFSRKFP
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???????









































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   .........370.........380.........390.........400.........410.........420
Sequence  DRYFDVAIAEQHAVTFAAGLAIGGYKPIVAIYSTFLQRAYDQVLHDVAIQKLPVLFAIDR
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   .........430.........440.........450.........460.........470.........480
Sequence  AGIVGADGQTHQGAFDLSYLRCIPEMVIMTPSDENECRQMLYTGYHYNDGPSAVRYPRGN
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Disorder  ?






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   .........490.........500.........510.........520.........530.........540
Sequence  AVGVELTPLEKLPIGKGIVKRRGEKLAILNFGTLMPEAAKVAESLNATLVDMRFVKPLDE
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   .........550.........560.........570.........580.........590.........600
Sequence  ALILEMAASHEALVTVEENAIMGGAGSGVNEVLMAHRKPVPVLNIGLPDFFIPQGTQEEM
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   .........610.........620
Sequence  RAELGLDAAGMEAKIKAWLA
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 2o1s chain C

3D model

Region: 3 - 620
Aligned: 535
Modelled: 535
Confidence: 100.0%
Identity: 98%
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 2o1x chain A

3D model

Region: 6 - 620
Aligned: 570
Modelled: 573
Confidence: 100.0%
Identity: 48%
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 3mos chain A

3D model

Region: 16 - 616
Aligned: 549
Modelled: 557
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase

Phyre2

PDB 2r8p chain A

3D model

Region: 28 - 619
Aligned: 541
Modelled: 549
Confidence: 100.0%
Identity: 22%
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 2g28 chain A

3D model

Region: 24 - 620
Aligned: 596
Modelled: 597
Confidence: 100.0%
Identity: 18%
PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex

Phyre2

PDB 1r9j chain B

3D model

Region: 21 - 619
Aligned: 580
Modelled: 587
Confidence: 100.0%
Identity: 20%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana

Phyre2

PDB 3hyl chain B

3D model

Region: 28 - 619
Aligned: 581
Modelled: 591
Confidence: 100.0%
Identity: 19%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis

Phyre2

PDB 3m7i chain A

3D model

Region: 23 - 617
Aligned: 534
Modelled: 537
Confidence: 100.0%
Identity: 21%
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 2e6k chain B

3D model

Region: 26 - 619
Aligned: 534
Modelled: 528
Confidence: 100.0%
Identity: 24%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505

Phyre2

PDB 3uk1 chain A

3D model

Region: 24 - 620
Aligned: 582
Modelled: 597
Confidence: 100.0%
Identity: 20%
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 1tkc chain A

3D model

Region: 27 - 620
Aligned: 575
Modelled: 594
Confidence: 100.0%
Identity: 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

Phyre2

PDB 1itz chain C

3D model

Region: 24 - 618
Aligned: 585
Modelled: 595
Confidence: 100.0%
Identity: 21%
PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp

Phyre2

PDB 3kom chain B

3D model

Region: 29 - 619
Aligned: 531
Modelled: 543
Confidence: 100.0%
Identity: 21%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis

Phyre2

PDB 3ahh chain A

3D model

Region: 25 - 620
Aligned: 559
Modelled: 568
Confidence: 100.0%
Identity: 16%
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 1ni4 chain D

3D model

Region: 318 - 620
Aligned: 300
Modelled: 303
Confidence: 100.0%
Identity: 18%
PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase

Phyre2

PDB 1ols chain B

3D model

Region: 308 - 620
Aligned: 308
Modelled: 313
Confidence: 100.0%
Identity: 18%
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

PDB 1um9 chain D

3D model

Region: 319 - 619
Aligned: 296
Modelled: 301
Confidence: 100.0%
Identity: 20%
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

Phyre2

PDB 3duf chain D

3D model

Region: 317 - 620
Aligned: 300
Modelled: 304
Confidence: 100.0%
Identity: 21%
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

Phyre2

PDB 2bp7 chain F

3D model

Region: 317 - 619
Aligned: 298
Modelled: 298
Confidence: 100.0%
Identity: 19%
PDB header:oxidoreductase
Chain: F: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: new crystal form of the pseudomonas putida branched-chain2 dehydrogenase (e1)

Phyre2

PDB 2iea chain A domain 2

3D model

Region: 24 - 331
Aligned: 308
Modelled: 308
Confidence: 100.0%
Identity: 19%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: TK-like PP module

Phyre2
1

c2o1sC_
2

c2o1xA_
3

c3mosA_
4

c2r8pA_
5

c2g28A_
6

c1r9jB_
7

c3hylB_
8

c3m7iA_
9

c2e6kB_
10

c3uk1A_
11

c1tkcA_
12

c1itzC_
13

c3komB_
14

c3ahhA_
15

c1ni4D_
16

c1olsB_
17

c1um9D_
18

c3dufD_
19

c2bp7F_
20

d2ieaa2
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2o1sC_



100.0 98 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
2c2o1xA_



100.0 48 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
3c3mosA_



100.0 23 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase
4c2r8pA_



100.0 22 PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate
5c2g28A_



100.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex
6c1r9jB_



100.0 20 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana
7c3hylB_



100.0 19 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis
8c3m7iA_



100.0 21 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
9c2e6kB_



100.0 24 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505
10c3uk1A_



100.0 20 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
11c1tkcA_



100.0 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
12c1itzC_



100.0 21 PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp
13c3komB_



100.0 21 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis
14c3ahhA_



100.0 16 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
15c1ni4D_



100.0 18 PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase
16c1olsB_



100.0 18 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
17c1um9D_



100.0 20 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
18c3dufD_



100.0 21 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
19c2bp7F_



100.0 19 PDB header:oxidoreductase
Chain: F: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: new crystal form of the pseudomonas putida branched-chain2 dehydrogenase (e1)
20d2ieaa2



100.0 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
21d1itza1



not modelled 100.0 25 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
22d2r8oa2



not modelled 100.0 24 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
23d1r9ja2



not modelled 100.0 24 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
24d1gpua1



not modelled 100.0 26 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
25c1ik6A_



not modelled 100.0 24 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 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
27d1gpua2



not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
28d1itza2



not modelled 100.0 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
29d1r9ja1



not modelled 100.0 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
30c2jgdA_



not modelled 100.0 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-oxoglutarate dehydrogenase e1 component;
PDBTitle: e. coli 2-oxoglutarate dehydrogenase (e1o)
31c2yicC_



not modelled 100.0 16 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)
32d2ieaa1



not modelled 100.0 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
33d1umdb1



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 Pyr module
34d1w85b1



not modelled 100.0 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
35c2xt6B_



not modelled 100.0 16 PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)
36d2ozlb1



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 Pyr module
37d1qs0b1



not modelled 100.0 17 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 17 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 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
40d2ozla1



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
41d1ik6a1



not modelled 100.0 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
42d1umda_



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
43d2bfda1



not modelled 100.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
44d1qs0a_



not modelled 99.9 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
45d1qs0b2



not modelled 99.9 23 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
46d2ozlb2



not modelled 99.9 21 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
47d2bfdb2



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
48d1umdb2



not modelled 99.9 24 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
49d1w85b2



not modelled 99.9 27 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
50d1ik6a2



not modelled 99.9 24 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
51d1itza3



not modelled 99.8 22 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
52d1r9ja3



not modelled 99.8 17 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
53d2r8oa3



not modelled 99.8 19 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
54d1gpua3



not modelled 99.7 16 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
55d2ieaa3



not modelled 99.7 15 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
56d1t9ba3



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
57d1q6za3



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
58d2ihta3



not modelled 99.3 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
59c2c3yA_



not modelled 99.3 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate-ferredoxin oxidoreductase;
PDBTitle: crystal structure of the radical form of2 pyruvate:ferredoxin oxidoreductase from desulfovibrio3 africanus
60d1jsca3



not modelled 99.3 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
61d2ji7a3



not modelled 99.3 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
62d2djia3



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
63d1ozha3



not modelled 99.2 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
64c2pgnA_



not modelled 99.2 17 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
65d1ybha3



not modelled 99.2 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
66c2v3wC_



not modelled 99.2 20 PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida
67d1ovma3



not modelled 99.2 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
68d2ez9a3



not modelled 99.1 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
69c2djiA_



not modelled 99.1 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
70c3ju3A_



not modelled 99.1 16 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
71c1t9dB_



not modelled 99.1 21 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
72c2q27B_



not modelled 99.0 15 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
73c1powA_



not modelled 99.0 9 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
74c1jscA_



not modelled 99.0 22 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
75d1pvda3



not modelled 99.0 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
76c1upaC_



not modelled 99.0 16 PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)
77c1ovmC_



not modelled 99.0 18 PDB header:lyase
Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase;
PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae
78c3eyaE_



not modelled 98.9 15 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
79c2ag1A_



not modelled 98.9 16 PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet
80c2panF_



not modelled 98.9 15 PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase
81c1yi1A_



not modelled 98.9 17 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
82d1zpda3



not modelled 98.9 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
83c1zpdA_



not modelled 98.9 21 PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis
84c2ji6B_



not modelled 98.9 12 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
85c1ozhD_



not modelled 98.9 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.
86c2w93A_



not modelled 98.9 14 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
87c3lq1A_



not modelled 98.8 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
88c2vbiF_



not modelled 98.8 17 PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus
89c2x7jA_



not modelled 98.8 14 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
90c2jlaD_



not modelled 98.7 18 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
91c2vbgB_



not modelled 98.7 17 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
92c2nxwB_



not modelled 98.6 20 PDB header:lyase
Chain: B: PDB Molecule:phenyl-3-pyruvate decarboxylase;
PDBTitle: crystal structure of phenylpyruvate decarboxylase of azospirillum2 brasilense
93d2c42a3



not modelled 98.4 14 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Pyruvate-ferredoxin oxidoreductase, PFOR, domain II
94d2ez9a2



not modelled 98.0 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
95d2djia2



not modelled 97.8 11 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
96d2c42a1



not modelled 97.8 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR Pyr module
97d1t9ba2



not modelled 97.8 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
98d1pvda2



not modelled 97.8 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
99d1ybha2



not modelled 97.7 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
100d2c42a2



not modelled 97.6 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR PP module
101d1zpda2



not modelled 97.6 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
102d1q6za2



not modelled 97.5 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
103d1ovma2



not modelled 97.1 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
104d1ozha2



not modelled 96.7 11 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
105d2ihta2



not modelled 95.7 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
106c1yd7A_



not modelled 95.7 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-keto acid:ferredoxin oxidoreductase subunit
PDBTitle: conserved hypothetical protein pfu-1647980-001 from2 pyrococcus furiosus
107d2ji7a2



not modelled 95.6 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
108c3tovB_



not modelled 65.8 12 PDB header:transferase
Chain: B: PDB Molecule:glycosyl transferase family 9;
PDBTitle: the crystal structure of the glycosyl transferase family 9 from2 veillonella parvula dsm 2008
109d2glza1



not modelled 45.0 17 Fold:FwdE/GAPDH domain-like
Superfamily:FwdE-like
Family:FwdE-like
110d2gvia1



not modelled 41.4 18 Fold:FwdE/GAPDH domain-like
Superfamily:FwdE-like
Family:FwdE-like
111d1pswa_



not modelled 37.7 14 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:ADP-heptose LPS heptosyltransferase II
112d1wi9a_



not modelled 34.8 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PCI domain (PINT motif)
113d1z67a1



not modelled 31.5 18 Fold:YidB-like
Superfamily:YidB-like
Family:YidB-like
114c2vxoB_



not modelled 30.1 11 PDB header:ligase
Chain: B: PDB Molecule:gmp synthase [glutamine-hydrolyzing];
PDBTitle: human gmp synthetase in complex with xmp
115d2zjrv1



not modelled 29.3 22 Fold:Long alpha-hairpin
Superfamily:Ribosomal protein L29 (L29p)
Family:Ribosomal protein L29 (L29p)
116c3bboZ_



not modelled 25.0 22 PDB header:ribosome
Chain: Z: PDB Molecule:ribosomal protein l29;
PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome
117c2l6pA_



not modelled 24.0 23 PDB header:structure genomics, unknown function
Chain: A: PDB Molecule:phac1, phac2 and phad genes;
PDBTitle: nmr solution structure of the protein np_253742.1
118c2gviA_



not modelled 23.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of a putative formylmethanofuran dehydrogenase2 subunit e (ta1109) from thermoplasma acidophilum at 1.87 a resolution
119d2aq0a1



not modelled 23.6 17 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
120c2kvuA_



not modelled 22.4 11 PDB header:transcription regulator
Chain: A: PDB Molecule:mkl/myocardin-like protein 1;
PDBTitle: solution nmr structure of sap domain of mkl/myocardin-like2 protein 1 from h.sapiens, northeast structural genomics3 consortium target target hr4547e

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