Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AFG3
DateWed Jan 25 15:20:33 GMT 2012
Unique Job IDe4e34c2459553c32

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2xt6B_
Top template information
PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)
Confidence and coverage
Confidence:100.0% Coverage: 91%
850 residues ( 91% 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  MQNSALKAWLDSSYLSGANQSWIEQLYEDFLTDPDSVDANWRSTFQQLPGTGVKPDQFHS
Secondary structure 
SS confidence 
Disorder  ????
?
????
?
??
?
???????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  QTREYFRRLAKDASRYSSTISDPDTNVKQVKVLQLINAYRFRGHQHANLDPLGLWQQDKV
Secondary structure 
SS confidence 
Disorder  ???????????????????????
??????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  ADLDPSFHDLTEADFQETFNVGSFASGKETMKLGELLEALKQTYCGPIGAEYMHITSTEE
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  KRWIQQRIESGRATFNSEEKKRFLSELTAAEGLERYLGAKFPGAKRFSLEGGDALIPMLK
Secondary structure 
SS confidence 
Disorder 
??????
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  EMIRHAGNSGTREVVLGMAHRGRLNVLVNVLGKKPQDLFDEFAGKHKEHLGTGDVKYHMG
Secondary structure 
SS confidence 
Disorder 
????????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  FSSDFQTDGGLVHLALAFNPSHLEIVSPVVIGSVRARLDRLDEPSSNKVLPITIHGDAAV
Secondary structure 
SS confidence 
Disorder 
??
?
??
?
????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  TGQGVVQETLNMSKARGYEVGGTVRIVINNQVGFTTSNPLDARSTPYCTDIGKMVQAPIF
Secondary structure 
SS confidence 
Disorder 
?
?????
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  HVNADDPEAVAFVTRLALDFRNTFKRDVFIDLVCYRRHGHNEADEPSATQPLMYQKIKKH
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  PTPRKIYADKLEQEKVATLEDATEMVNLYRDALDAGDCVVAEWRPMNMHSFTWSPYLNHE
Secondary structure 
SS confidence 
Disorder 
?
?
???
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  WDEEYPNKVEMKRLQELAKRISTVPEAVEMQSRVAKIYGDRQAMAAGEKLFDWGGAENLA
Secondary structure 
SS confidence 
Disorder  ?
??
?
?????
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  YATLVDEGIPVRLSGEDSGRGTFFHRHAVIHNQSNGSTYTPLQHIHNGQGAFRVWDSVLS
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  EEAVLAFEYGYATAEPRTLTIWEAQFGDFANGAQVVIDQFISSGEQKWGRMCGLVMLLPH
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  GYEGQGPEHSSARLERYLQLCAEQNMQVCVPSTPAQVYHMLRRQALRGMRRPLVVMSPKS
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........790.........800.........810.........820.........830.........840
Sequence  LLRHPLAVSSLEELANGTFLPAIGEIDELDPKGVKRVVMCSGKVYYDLLEQRRKNNQHDV
Secondary structure 
SS confidence 
Disorder 
??????
????
Disorder confidence 
 
   .........850.........860.........870.........880.........890.........900
Sequence  AIVRIEQLYPFPHKAMQEVLQQFAHVKDFVWCQEEPLNQGAWYCSQHHFREVIPFGASLR
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........910.........920.........930...
Sequence  YAGRPASASPAVGYMSVHQKQQQDLVNDALNVE
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 2xt6 chain B

3D model

Region: 16 - 931
Aligned: 850
Modelled: 874
Confidence: 100.0%
Identity: 46%
PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)

Phyre2

PDB 2jgd chain A

3D model

Region: 84 - 933
Aligned: 812
Modelled: 835
Confidence: 100.0%
Identity: 100%
PDB header:oxidoreductase
Chain: A: PDB Molecule:2-oxoglutarate dehydrogenase e1 component;
PDBTitle: e. coli 2-oxoglutarate dehydrogenase (e1o)

Phyre2

PDB 2yic chain C

3D model

Region: 91 - 931
Aligned: 789
Modelled: 824
Confidence: 100.0%
Identity: 47%
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)

Phyre2

PDB 1umd chain A

3D model

Region: 192 - 541
Aligned: 321
Modelled: 350
Confidence: 100.0%
Identity: 17%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: Branched-chain alpha-keto acid dehydrogenase PP module

Phyre2

PDB 2ozl chain A domain 1

3D model

Region: 193 - 541
Aligned: 316
Modelled: 343
Confidence: 100.0%
Identity: 18%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: Branched-chain alpha-keto acid dehydrogenase PP module

Phyre2

PDB 1qs0 chain A

3D model

Region: 188 - 541
Aligned: 325
Modelled: 344
Confidence: 100.0%
Identity: 14%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: Branched-chain alpha-keto acid dehydrogenase PP module

Phyre2

PDB 1w85 chain A

3D model

Region: 189 - 542
Aligned: 311
Modelled: 335
Confidence: 100.0%
Identity: 15%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: Branched-chain alpha-keto acid dehydrogenase PP module

Phyre2

PDB 2bfd chain A domain 1

3D model

Region: 189 - 570
Aligned: 326
Modelled: 346
Confidence: 100.0%
Identity: 15%
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Family: Branched-chain alpha-keto acid dehydrogenase PP module

Phyre2

PDB 3mos chain A

3D model

Region: 321 - 912
Aligned: 468
Modelled: 510
Confidence: 100.0%
Identity: 13%
PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase

Phyre2

PDB 1ols chain B

3D model

Region: 567 - 932
Aligned: 325
Modelled: 351
Confidence: 100.0%
Identity: 15%
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 2o1x chain A

3D model

Region: 321 - 932
Aligned: 447
Modelled: 492
Confidence: 100.0%
Identity: 17%
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 1itz chain C

3D model

Region: 318 - 885
Aligned: 491
Modelled: 527
Confidence: 100.0%
Identity: 13%
PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp

Phyre2

PDB 3duf chain D

3D model

Region: 590 - 932
Aligned: 315
Modelled: 329
Confidence: 100.0%
Identity: 19%
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 1tkc chain A

3D model

Region: 318 - 884
Aligned: 485
Modelled: 522
Confidence: 100.0%
Identity: 14%
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 2bp7 chain F

3D model

Region: 589 - 932
Aligned: 315
Modelled: 330
Confidence: 100.0%
Identity: 18%
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 1um9 chain D

3D model

Region: 591 - 932
Aligned: 310
Modelled: 328
Confidence: 100.0%
Identity: 19%
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 2r8p chain A

3D model

Region: 318 - 864
Aligned: 469
Modelled: 510
Confidence: 100.0%
Identity: 12%
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: 321 - 885
Aligned: 482
Modelled: 519
Confidence: 100.0%
Identity: 14%
PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis

Phyre2

PDB 1ni4 chain D

3D model

Region: 590 - 929
Aligned: 315
Modelled: 326
Confidence: 100.0%
Identity: 16%
PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase

Phyre2

PDB 3m7i chain A

3D model

Region: 322 - 884
Aligned: 470
Modelled: 498
Confidence: 100.0%
Identity: 14%
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
1
c2xt6B_
2
c2jgdA_
3
c2yicC_
4
d1umda_
5
d2ozla1
6
d1qs0a_
7
d1w85a_
8
d2bfda1
9
c3mosA_
10
c1olsB_
11
c2o1xA_
12
c1itzC_
13
c3dufD_
14
c1tkcA_
15
c2bp7F_
16
c1um9D_
17
c2r8pA_
18
c3hylB_
19
c1ni4D_
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c3m7iA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2xt6B_
100.0 46 PDB header:lyase
Chain: B: PDB Molecule:2-oxoglutarate decarboxylase;
PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form)
2c2jgdA_
100.0 100 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-oxoglutarate dehydrogenase e1 component;
PDBTitle: e. coli 2-oxoglutarate dehydrogenase (e1o)
3c2yicC_
100.0 47 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)
4d1umda_
100.0 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
5d2ozla1
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
6d1qs0a_
100.0 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
7d1w85a_
100.0 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
8d2bfda1
100.0 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase PP module
9c3mosA_
100.0 13 PDB header:transferase
Chain: A: PDB Molecule:transketolase;
PDBTitle: the structure of human transketolase
10c1olsB_
100.0 15 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
11c2o1xA_
100.0 17 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
12c1itzC_
100.0 13 PDB header:transferase
Chain: C: PDB Molecule:transketolase;
PDBTitle: maize transketolase in complex with tpp
13c3dufD_
100.0 19 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
14c1tkcA_
100.0 14 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
15c2bp7F_
100.0 18 PDB header:oxidoreductase
Chain: F: PDB Molecule:2-oxoisovalerate dehydrogenase beta subunit;
PDBTitle: new crystal form of the pseudomonas putida branched-chain2 dehydrogenase (e1)
16c1um9D_
100.0 19 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
17c2r8pA_
100.0 12 PDB header:transferase
Chain: A: PDB Molecule:transketolase 1;
PDBTitle: transketolase from e. coli in complex with substrate d-2 fructose-6-phosphate
18c3hylB_
100.0 14 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of transketolase from bacillus anthracis
19c1ni4D_
100.0 16 PDB header:oxidoreductase
Chain: D: PDB Molecule:pyruvate dehydrogenase e1 component: beta
PDBTitle: human pyruvate dehydrogenase
20c3m7iA_
100.0 14 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
21c2e6kB_
not modelled 100.0 15 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: x-ray structure of thermus thermopilus hb8 tt0505
22c2o1sC_
not modelled 100.0 17 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
23c3uk1A_
not modelled 100.0 12 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
24c1r9jB_
not modelled 100.0 16 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: transketolase from leishmania mexicana
25d1qs0b1
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 Pyr module
26c3komB_
not modelled 100.0 14 PDB header:transferase
Chain: B: PDB Molecule:transketolase;
PDBTitle: crystal structure of apo transketolase from francisella tularensis
27c1ik6A_
not modelled 100.0 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase;
PDBTitle: 3d structure of the e1beta subunit of pyruvate2 dehydrogenase from the archeon pyrobaculum aerophilum
28d2bfdb1
not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
29d2ozlb1
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
30d1w85b1
not modelled 100.0 22 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
31d1umdb1
not modelled 99.9 26 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
32d1ik6a1
not modelled 99.9 30 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Branched-chain alpha-keto acid dehydrogenase Pyr module
33c2g28A_
not modelled 99.9 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate dehydrogenase e1 component;
PDBTitle: e. coli pyruvate dehydrogenase h407a variant2 phosphonolactylthiamin diphosphate complex
34d1gpua1
not modelled 99.8 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
35d2r8oa2
not modelled 99.8 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
36d1r9ja2
not modelled 99.8 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
37d1itza1
not modelled 99.8 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
38c3ahhA_
not modelled 99.7 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
39d2r8oa1
not modelled 99.4 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
40c2djiA_
not modelled 99.3 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
41d2djia3
not modelled 99.2 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
42d1r9ja1
not modelled 99.1 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
43d1itza2
not modelled 99.0 14 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
44d1gpua2
not modelled 98.9 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
45d1qs0b2
not modelled 98.8 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
46d2bfdb2
not modelled 98.7 8 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
47d1umdb2
not modelled 98.7 10 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
48d2ozlb2
not modelled 98.6 13 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
49d2ieaa2
not modelled 98.5 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like PP module
50d1w85b2
not modelled 98.5 14 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain
51c2c3yA_
not modelled 98.5 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
52d1ik6a2
not modelled 98.5 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
53d1t9ba3
not modelled 98.4 20 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
54d2ez9a3
not modelled 98.2 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
55d1jsca3
not modelled 98.1 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
56d1ybha3
not modelled 98.1 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
57d1q6za3
not modelled 98.0 21 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
58c2panF_
not modelled 98.0 19 PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase
59d2ihta3
not modelled 97.8 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
60c3eyaE_
not modelled 97.8 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
61d1pvda3
not modelled 97.7 17 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
62d1ozha3
not modelled 97.7 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 97.7 16 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
64c1jscA_
not modelled 97.6 21 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
65c1powA_
not modelled 97.6 21 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
66c2q27B_
not modelled 97.6 21 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
67c2v3wC_
not modelled 97.5 17 PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida
68c1t9dB_
not modelled 97.5 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
69c3ju3A_
not modelled 97.5 17 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
70c2ag1A_
not modelled 97.4 22 PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet
71c2nxwB_
not modelled 97.2 15 PDB header:lyase
Chain: B: PDB Molecule:phenyl-3-pyruvate decarboxylase;
PDBTitle: crystal structure of phenylpyruvate decarboxylase of azospirillum2 brasilense
72d1ovma3
not modelled 97.1 23 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
73d1zpda3
not modelled 97.1 19 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
74c2ji6B_
not modelled 97.1 20 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
75c1upaC_
not modelled 97.1 15 PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)
76c2pgnA_
not modelled 97.1 19 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
77c2jlaD_
not modelled 97.0 16 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
78c3lq1A_
not modelled 96.9 17 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
79c1yi1A_
not modelled 96.8 18 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
80c2x7jA_
not modelled 96.7 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
81c2vbgB_
not modelled 96.7 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
82d2c42a3
not modelled 96.5 18 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Pyruvate-ferredoxin oxidoreductase, PFOR, domain II
83c1ozhD_
not modelled 96.5 16 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.
84c1ovmC_
not modelled 96.4 19 PDB header:lyase
Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase;
PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae
85c1zpdA_
not modelled 96.4 16 PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis
86c2w93A_
not modelled 96.1 17 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
87c2vbiF_
not modelled 95.9 13 PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus
88d1itza3
not modelled 92.2 12 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
89d1r9ja3
not modelled 91.3 16 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
90d2c42a2
not modelled 90.7 15 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR PP module
91d1gpua3
not modelled 89.5 10 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
92d2c42a1
not modelled 89.2 13 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR Pyr module
93d2r8oa3
not modelled 85.6 5 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
94c1yd7A_
not modelled 81.9 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-keto acid:ferredoxin oxidoreductase subunit
PDBTitle: conserved hypothetical protein pfu-1647980-001 from2 pyrococcus furiosus
95d2ieaa1
not modelled 81.6 18 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:TK-like Pyr module
96d1bqca_
not modelled 75.8 10 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
97c3pzvB_
not modelled 73.5 9 PDB header:hydrolase
Chain: B: PDB Molecule:endoglucanase;
PDBTitle: c2 crystal form of the endo-1,4-beta-glucanase from bacillus subtilis2 168
98d1wkya2
not modelled 71.2 8 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
99c3jugA_
not modelled 71.2 14 PDB header:hydrolase
Chain: A: PDB Molecule:beta-mannanase;
PDBTitle: crystal structure of endo-beta-1,4-mannanase from the alkaliphilic2 bacillus sp. n16-5
100d2djia2
not modelled 66.9 10 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
101c3kwsB_
not modelled 59.3 11 PDB header:isomerase
Chain: B: PDB Molecule:putative sugar isomerase;
PDBTitle: crystal structure of putative sugar isomerase (yp_001305149.1) from2 parabacteroides distasonis atcc 8503 at 1.68 a resolution
102c1wkyA_
not modelled 47.5 11 PDB header:hydrolase
Chain: A: PDB Molecule:endo-beta-1,4-mannanase;
PDBTitle: crystal structure of alkaline mannanase from bacillus sp. strain jamb-2 602: catalytic domain and its carbohydrate binding module
103d2ez9a2
not modelled 44.4 12 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
104d1ugpb_
not modelled 43.4 21 Fold:SH3-like barrel
Superfamily:Electron transport accessory proteins
Family:Nitrile hydratase beta chain
105d1jz8a5
not modelled 43.3 21 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
106c2dd4H_
not modelled 43.2 17 PDB header:hydrolase
Chain: H: PDB Molecule:thiocyanate hydrolase beta subunit;
PDBTitle: thiocyanate hydrolase (scnase) from thiobacillus thioparus2 recombinant apo-enzyme
107d2di4a1
not modelled 41.8 19 Fold:FtsH protease domain-like
Superfamily:FtsH protease domain-like
Family:FtsH protease domain-like
108c3na6A_
not modelled 41.0 24 PDB header:hydrolase
Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase;
PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution
109c3mv14_
not modelled 40.7 19 PDB header:hydrolase
Chain: 4: PDB Molecule:beta-galactosidase;
PDBTitle: e.coli (lacz) beta-galactosidase (r599a) in complex with guanidinium
110d1h4pa_
not modelled 40.5 17 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
111c3gm8A_
not modelled 39.4 14 PDB header:hydrolase
Chain: A: PDB Molecule:glycoside hydrolase family 2, candidate beta-glycosidase;
PDBTitle: crystal structure of a beta-glycosidase from bacteroides vulgatus
112c3o5vA_
not modelled 39.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:x-pro dipeptidase;
PDBTitle: the crystal structure of the creatinase/prolidase n-terminal domain of2 an x-pro dipeptidase from streptococcus pyogenes to 1.85a
113d3bvua3
not modelled 38.0 17 Fold:7-stranded beta/alpha barrel
Superfamily:Glycoside hydrolase/deacetylase
Family:alpha-mannosidase
114d2ji7a2
not modelled 37.4 8 Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase Pyr module
115c1jz6C_
not modelled 35.0 19 PDB header:hydrolase
Chain: C: PDB Molecule:beta-galactosidase;
PDBTitle: e. coli (lacz) beta-galactosidase in complex with galacto-2 tetrazole
116d2vzsa5
not modelled 34.4 19 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
117c3obaA_
not modelled 33.0 14 PDB header:hydrolase
Chain: A: PDB Molecule:beta-galactosidase;
PDBTitle: structure of the beta-galactosidase from kluyveromyces lactis
118d2uz9a1
not modelled 32.9 26 Fold:Composite domain of metallo-dependent hydrolases
Superfamily:Composite domain of metallo-dependent hydrolases
Family:SAH/MTA deaminase-like
119c3fn9B_
not modelled 32.7 12 PDB header:hydrolase
Chain: B: PDB Molecule:putative beta-galactosidase;
PDBTitle: crystal structure of putative beta-galactosidase from bacteroides2 fragilis
120d1yq2a5
not modelled 32.5 31 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases

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