Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76518
DateThu Jan 5 12:23:58 GMT 2012
Unique Job ID6b66f5763c3f76a5

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d2vjma1
Top template information
Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
Confidence and coverage
Confidence:100.0% Coverage: 98%
372 residues ( 98% 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  MTNNESKGPFEGLLVIDMTHVLNGPFGTQLLCNMGARVIKVEPPGHGDDTRTFGPYVDGQ
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Disorder  ??????????

















































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   .........70.........80.........90.........100.........110.........120
Sequence  SLYYSFINHGKESVVLDLKNDHDKSIFINMLKQADVLAENFRPGTMEKLGFSWETLQEIN
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   .........130.........140.........150.........160.........170.........180
Sequence  PRLIYASSSGFGHTGPLKDAPAYDTIIQAMSGIMMETGYPDAPPVRVGTSLADLCGGVYL
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?


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

?
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   .........250.........260.........270.........280.........290.........300
Sequence  VFNTQDKPITICCGNDKLFSALCQALELTELVNDPRFSSNILRVQNQAILKQYIERTLKT
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   .........310.........320.........330.........340.........350.........360
Sequence  QAAEVWLARIHEVGVPVAPLLSVAEAIKLPQTQARNMLIEAGGIMMPGNPIKISGCADPH
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???
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   .........370.........380.
Sequence  VMPGAATLDQHGEQIRQEFSS
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Disorder  ???















??
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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 2vjm chain A domain 1

3D model

Region: 7 - 380
Aligned: 372
Modelled: 374
Confidence: 100.0%
Identity: 32%
Fold: CoA-transferase family III (CaiB/BaiF)
Superfamily: CoA-transferase family III (CaiB/BaiF)
Family: CoA-transferase family III (CaiB/BaiF)

Phyre2

PDB 1xk7 chain A domain 1

3D model

Region: 1 - 380
Aligned: 370
Modelled: 375
Confidence: 100.0%
Identity: 23%
Fold: CoA-transferase family III (CaiB/BaiF)
Superfamily: CoA-transferase family III (CaiB/BaiF)
Family: CoA-transferase family III (CaiB/BaiF)

Phyre2

PDB 1q7e chain A

3D model

Region: 7 - 380
Aligned: 365
Modelled: 374
Confidence: 100.0%
Identity: 32%
Fold: CoA-transferase family III (CaiB/BaiF)
Superfamily: CoA-transferase family III (CaiB/BaiF)
Family: CoA-transferase family III (CaiB/BaiF)

Phyre2

PDB 1xa3 chain B

3D model

Region: 1 - 380
Aligned: 370
Modelled: 377
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: B: PDB Molecule:crotonobetainyl-coa:carnitine coa-transferase;
PDBTitle: crystal structure of caib, a type iii coa transferase in2 carnitine metabolism

Phyre2

PDB 1x74 chain A domain 1

3D model

Region: 8 - 379
Aligned: 348
Modelled: 355
Confidence: 100.0%
Identity: 27%
Fold: CoA-transferase family III (CaiB/BaiF)
Superfamily: CoA-transferase family III (CaiB/BaiF)
Family: CoA-transferase family III (CaiB/BaiF)

Phyre2

PDB 2g04 chain B

3D model

Region: 8 - 375
Aligned: 347
Modelled: 363
Confidence: 100.0%
Identity: 28%
PDB header:isomerase
Chain: B: PDB Molecule:probable fatty-acid-coa racemase far;
PDBTitle: crystal structure of fatty acid-coa racemase from mycobacterium2 tuberculosis h37rv

Phyre2

PDB 3p2y chain A

3D model

Region: 10 - 130
Aligned: 106
Modelled: 106
Confidence: 95.1%
Identity: 10%
PDB header:oxidoreductase
Chain: A: PDB Molecule:alanine dehydrogenase/pyridine nucleotide transhydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase/pyridine nucleotide2 transhydrogenase from mycobacterium smegmatis

Phyre2

PDB 2bru chain B

3D model

Region: 10 - 129
Aligned: 105
Modelled: 105
Confidence: 95.0%
Identity: 15%
PDB header:oxidoreductase
Chain: B: PDB Molecule:nad(p) transhydrogenase subunit alpha;
PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase

Phyre2

PDB 1l7d chain A domain 1

3D model

Region: 5 - 129
Aligned: 106
Modelled: 110
Confidence: 94.6%
Identity: 13%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 3dhy chain C

3D model

Region: 9 - 132
Aligned: 93
Modelled: 124
Confidence: 94.5%
Identity: 18%
PDB header:hydrolase
Chain: C: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structures of mycobacterium tuberculosis s-adenosyl-l-2 homocysteine hydrolase in ternary complex with substrate and3 inhibitors

Phyre2

PDB 1wwk chain A

3D model

Region: 10 - 129
Aligned: 93
Modelled: 93
Confidence: 94.4%
Identity: 17%
PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3

Phyre2

PDB 3kbo chain B

3D model

Region: 3 - 129
Aligned: 100
Modelled: 107
Confidence: 94.2%
Identity: 16%
PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate/hydroxypyruvate reductase a;
PDBTitle: 2.14 angstrom crystal structure of putative oxidoreductase (ycdw) from2 salmonella typhimurium in complex with nadp

Phyre2

PDB 1pjc chain A

3D model

Region: 10 - 130
Aligned: 103
Modelled: 106
Confidence: 93.9%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad

Phyre2

PDB 1v8b chain A

3D model

Region: 9 - 134
Aligned: 96
Modelled: 122
Confidence: 93.6%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase

Phyre2

PDB 2ome chain A

3D model

Region: 10 - 129
Aligned: 94
Modelled: 94
Confidence: 93.6%
Identity: 13%
PDB header:oxidoreductase
Chain: A: PDB Molecule:c-terminal-binding protein 2;
PDBTitle: crystal structure of human ctbp2 dehydrogenase complexed with nad(h)

Phyre2

PDB 3one chain A

3D model

Region: 10 - 132
Aligned: 93
Modelled: 112
Confidence: 93.6%
Identity: 18%
PDB header:hydrolase/hydrolase substrate
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of lupinus luteus s-adenosyl-l-homocysteine2 hydrolase in complex with adenine

Phyre2

PDB 1gdh chain A domain 1

3D model

Region: 2 - 129
Aligned: 103
Modelled: 103
Confidence: 93.4%
Identity: 10%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 2dld chain A domain 1

3D model

Region: 3 - 129
Aligned: 99
Modelled: 110
Confidence: 93.2%
Identity: 18%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 2rir chain A

3D model

Region: 10 - 129
Aligned: 92
Modelled: 105
Confidence: 93.1%
Identity: 15%
PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis

Phyre2

PDB 2g76 chain A

3D model

Region: 10 - 129
Aligned: 93
Modelled: 93
Confidence: 93.1%
Identity: 8%
PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase

Phyre2
1

d2vjma1
2

d1xk7a1
3

d1q7ea_
4

c1xa3B_
5

d1x74a1
6

c2g04B_
7

c3p2yA_
8

c2bruB_
9

d1l7da1
10

c3dhyC_
11

c1wwkA_
12

c3kboB_
13

c1pjcA_
14

c1v8bA_
15

c2omeA_
16

c3oneA_
17

d1gdha1
18

d2dlda1
19

c2rirA_
20

c2g76A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d2vjma1



100.0 32 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
2d1xk7a1



100.0 23 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
3d1q7ea_



100.0 32 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
4c1xa3B_



100.0 23 PDB header:transferase
Chain: B: PDB Molecule:crotonobetainyl-coa:carnitine coa-transferase;
PDBTitle: crystal structure of caib, a type iii coa transferase in2 carnitine metabolism
5d1x74a1



100.0 27 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
6c2g04B_



100.0 28 PDB header:isomerase
Chain: B: PDB Molecule:probable fatty-acid-coa racemase far;
PDBTitle: crystal structure of fatty acid-coa racemase from mycobacterium2 tuberculosis h37rv
7c3p2yA_



95.1 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:alanine dehydrogenase/pyridine nucleotide transhydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase/pyridine nucleotide2 transhydrogenase from mycobacterium smegmatis
8c2bruB_



95.0 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad(p) transhydrogenase subunit alpha;
PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase
9d1l7da1



94.6 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
10c3dhyC_



94.5 18 PDB header:hydrolase
Chain: C: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structures of mycobacterium tuberculosis s-adenosyl-l-2 homocysteine hydrolase in ternary complex with substrate and3 inhibitors
11c1wwkA_



94.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3
12c3kboB_



94.2 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate/hydroxypyruvate reductase a;
PDBTitle: 2.14 angstrom crystal structure of putative oxidoreductase (ycdw) from2 salmonella typhimurium in complex with nadp
13c1pjcA_



93.9 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad
14c1v8bA_



93.6 17 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
15c2omeA_



93.6 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:c-terminal-binding protein 2;
PDBTitle: crystal structure of human ctbp2 dehydrogenase complexed with nad(h)
16c3oneA_



93.6 18 PDB header:hydrolase/hydrolase substrate
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of lupinus luteus s-adenosyl-l-homocysteine2 hydrolase in complex with adenine
17d1gdha1



93.4 10 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
18d2dlda1



93.2 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
19c2rirA_



93.1 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
20c2g76A_



93.1 8 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase
21c1l7eC_



not modelled 92.9 13 PDB header:oxidoreductase
Chain: C: PDB Molecule:nicotinamide nucleotide transhydrogenase,
PDBTitle: crystal structure of r. rubrum transhydrogenase domain i2 with bound nadh
22d1ygya1



not modelled 92.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
23c3gvpB_



not modelled 92.5 20 PDB header:hydrolase
Chain: B: PDB Molecule:adenosylhomocysteinase 3;
PDBTitle: human sahh-like domain of human adenosylhomocysteinase 3
24d1pjca1



not modelled 92.4 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
25c2gcgB_



not modelled 92.4 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase
26d1qp8a1



not modelled 92.3 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
27d1mx3a1



not modelled 92.2 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
28d2naca1



not modelled 92.2 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
29d1dxya1



not modelled 92.0 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
30c3d64A_



not modelled 92.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei
31c1gdhA_



not modelled 91.8 9 PDB header:oxidoreductase(choh (d)-nad(p)+ (a))
Chain: A: PDB Molecule:d-glycerate dehydrogenase;
PDBTitle: crystal structure of a nad-dependent d-glycerate2 dehydrogenase at 2.4 angstroms resolution
32c3hg7A_



not modelled 91.7 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-isomer specific 2-hydroxyacid dehydrogenase family
PDBTitle: crystal structure of d-isomer specific 2-hydroxyacid dehydrogenase2 family protein from aeromonas salmonicida subsp. salmonicida a449
33c2dbqA_



not modelled 91.4 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:glyoxylate reductase;
PDBTitle: crystal structure of glyoxylate reductase (ph0597) from pyrococcus2 horikoshii ot3, complexed with nadp (i41)
34c3evtA_



not modelled 91.4 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from2 lactobacillus plantarum
35c3gvxA_



not modelled 91.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerate dehydrogenase related protein;
PDBTitle: crystal structure of glycerate dehydrogenase related2 protein from thermoplasma acidophilum
36d1j4aa1



not modelled 91.2 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
37c2pi1C_



not modelled 91.2 14 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-lactate dehydrogenase;
PDBTitle: crystal structure of d-lactate dehydrogenase from aquifex2 aeolicus complexed with nad and lactic acid
38c2cukC_



not modelled 90.8 19 PDB header:oxidoreductase
Chain: C: PDB Molecule:glycerate dehydrogenase/glyoxylate reductase;
PDBTitle: crystal structure of tt0316 protein from thermus thermophilus hb8
39c3d4oA_



not modelled 90.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase subunit a;
PDBTitle: crystal structure of dipicolinate synthase subunit a (np_243269.1)2 from bacillus halodurans at 2.10 a resolution
40c2eezG_



not modelled 90.4 15 PDB header:oxidoreductase
Chain: G: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase from themus thermophilus
41d1li4a1



not modelled 90.4 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
42c1xdwA_



not modelled 90.1 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad+-dependent (r)-2-hydroxyglutarate
PDBTitle: nad+-dependent (r)-2-hydroxyglutarate dehydrogenase from2 acidaminococcus fermentans
43d1np3a2



not modelled 89.6 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
44c3bazA_



not modelled 89.3 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyphenylpyruvate reductase;
PDBTitle: structure of hydroxyphenylpyruvate reductase from coleus blumei in2 complex with nadp+
45c1luaA_



not modelled 89.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:methylene tetrahydromethanopterin dehydrogenase;
PDBTitle: structure of methylene-tetrahydromethanopterin dehydrogenase from2 methylobacterium extorquens am1 complexed with nadp
46c2eklA_



not modelled 88.9 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: structure of st1218 protein from sulfolobus tokodaii
47c1d4fD_



not modelled 88.5 18 PDB header:hydrolase
Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase;
PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
48d1sc6a1



not modelled 88.0 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
49c1qp8A_



not modelled 87.9 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase;
PDBTitle: crystal structure of a putative formate dehydrogenase from2 pyrobaculum aerophilum
50c1j4aA_



not modelled 87.6 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-lactate dehydrogenase;
PDBTitle: insights into domain closure, substrate specificity and2 catalysis of d-lactate dehydrogenase from lactobacillus3 bulgaricus
51c3n58D_



not modelled 87.6 21 PDB header:hydrolase
Chain: D: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from brucella2 melitensis in ternary complex with nad and adenosine, orthorhombic3 form
52c2j6iC_



not modelled 87.3 14 PDB header:oxidoreductase
Chain: C: PDB Molecule:formate dehydrogenase;
PDBTitle: candida boidinii formate dehydrogenase (fdh) c-terminal2 mutant
53d1to3a_



not modelled 86.8 35 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
54d1m1na_



not modelled 86.5 20 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:Nitrogenase iron-molybdenum protein
55c2p2gD_



not modelled 85.9 17 PDB header:transferase
Chain: D: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: crystal structure of ornithine carbamoyltransferase from mycobacterium2 tuberculosis (rv1656): orthorhombic form
56d1pg5a2



not modelled 85.7 13 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
57c2xdoC_



not modelled 85.2 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:tetx2 protein;
PDBTitle: structure of the tetracycline degrading monooxygenase tetx2 from2 bacteroides thetaiotaomicron
58d1v8ba1



not modelled 84.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
59c1np3B_



not modelled 84.1 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
60c3n7uD_



not modelled 83.6 18 PDB header:oxidoreductase
Chain: D: PDB Molecule:formate dehydrogenase;
PDBTitle: nad-dependent formate dehydrogenase from higher-plant arabidopsis2 thaliana in complex with nad and azide
61d1ekxa2



not modelled 82.8 13 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
62c2vhyB_



not modelled 81.5 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of apo l-alanine dehydrogenase from2 mycobacterium tuberculosis
63c3gg9C_



not modelled 80.3 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase oxidoreductase protein;
PDBTitle: crystal structure of putative d-3-phosphoglycerate dehydrogenase2 oxidoreductase from ralstonia solanacearum
64d1vlva2



not modelled 80.2 16 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
65c1dxyA_



not modelled 80.0 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-2-hydroxyisocaproate dehydrogenase;
PDBTitle: structure of d-2-hydroxyisocaproate dehydrogenase
66c2d0iC_



not modelled 79.9 11 PDB header:oxidoreductase
Chain: C: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure ph0520 protein from pyrococcus horikoshii ot3
67d2jfga1



not modelled 79.8 17 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
68d1c1da1



not modelled 79.5 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
69c2nacA_



not modelled 77.7 13 PDB header:oxidoreductase(aldehyde(d),nad+(a))
Chain: A: PDB Molecule:nad-dependent formate dehydrogenase;
PDBTitle: high resolution structures of holo and apo formate dehydrogenase
70c2vouA_



not modelled 77.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,6-dihydroxypyridine hydroxylase;
PDBTitle: structure of 2,6-dihydroxypyridine-3-hydroxylase from2 arthrobacter nicotinovorans
71c1a1sA_



not modelled 76.4 20 PDB header:transcarbamylase
Chain: A: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: ornithine carbamoyltransferase from pyrococcus furiosus
72c2w2kB_



not modelled 76.2 9 PDB header:oxidoreductase
Chain: B: PDB Molecule:d-mandelate dehydrogenase;
PDBTitle: crystal structure of the apo forms of rhodotorula graminis2 d-mandelate dehydrogenase at 1.8a.
73d1u7za_



not modelled 75.2 17 Fold:Ribokinase-like
Superfamily:CoaB-like
Family:CoaB-like
74c1qo8A_



not modelled 73.6 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase
75c3allA_



not modelled 73.5 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase;
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid2 oxygenase, mutant y270a
76c3nlcA_



not modelled 73.3 27 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein vp0956;
PDBTitle: crystal structure of the vp0956 protein from vibrio parahaemolyticus.2 northeast structural genomics consortium target vpr147
77d1dxha2



not modelled 72.3 14 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
78d1seza1



not modelled 72.0 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
79c2qjhH_



not modelled 70.5 27 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
80c1d4cB_



not modelled 69.6 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:flavocytochrome c fumarate reductase;
PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1
81c2v1dA_



not modelled 69.1 24 PDB header:oxidoreductase/repressor
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: structural basis of lsd1-corest selectivity in histone h32 recognition
82c2xagA_



not modelled 69.1 24 PDB header:transcription
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: crystal structure of lsd1-corest in complex with para-bromo-2 (-)-trans-2-phenylcyclopropyl-1-amine
83c1f8sA_



not modelled 68.8 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-amino acid oxidase;
PDBTitle: crystal structure of l-amino acid oxidase from calloselasma2 rhodostoma, complexed with three molecules of o-aminobenzoate.
84c3ka7A_



not modelled 68.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase;
PDBTitle: crystal structure of an oxidoreductase from methanosarcina2 mazei. northeast structural genomics consortium target id3 mar208
85d1b0aa1



not modelled 67.9 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
86c1jrxA_



not modelled 67.8 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c;
PDBTitle: crystal structure of arg402ala mutant flavocytochrome c32 from shewanella frigidimarina
87d1pvva2



not modelled 67.5 16 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
88d1i8ta1



not modelled 67.0 20 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:UDP-galactopyranose mutase, N-terminal domain
89d1a4ia1



not modelled 66.7 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
90c3pdiG_



not modelled 66.6 19 PDB header:protein binding
Chain: G: PDB Molecule:nitrogenase mofe cofactor biosynthesis protein nife;
PDBTitle: precursor bound nifen
91c2r6zA_



not modelled 66.5 26 PDB header:transferase
Chain: A: PDB Molecule:upf0341 protein in rsp 3' region;
PDBTitle: crystal structure of the sam-dependent methyltransferase2 ngo1261 from neisseria gonorrhoeae, northeast structural3 genomics consortium target ngr48
92d2dw4a2



not modelled 66.2 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
93d1li4a2



not modelled 65.7 20 Fold:Flavodoxin-like
Superfamily:Formate/glycerate dehydrogenase catalytic domain-like
Family:S-adenosylhomocystein hydrolase
94c3d8xB_



not modelled 65.5 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:thioredoxin reductase 1;
PDBTitle: crystal structure of saccharomyces cerevisiae nadph dependent2 thioredoxin reductase 1
95c3oetF_



not modelled 65.1 14 PDB header:oxidoreductase
Chain: F: PDB Molecule:erythronate-4-phosphate dehydrogenase;
PDBTitle: d-erythronate-4-phosphate dehydrogenase complexed with nad
96d1qh8a_



not modelled 65.0 19 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:Nitrogenase iron-molybdenum protein
97d1g6q1_



not modelled 64.6 27 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:Arginine methyltransferase
98c1ybaC_



not modelled 64.2 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: the active form of phosphoglycerate dehydrogenase
99c2ef0A_



not modelled 63.7 18 PDB header:transferase
Chain: A: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: crystal structure of ornithine carbamoyltransferase from thermus2 thermophilus
100c2gk4A_



not modelled 63.4 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: the crystal structure of the dna/pantothenate metabolism flavoprotein2 from streptococcus pneumoniae
101d2ivda1



not modelled 62.8 16 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
102c3ihmB_



not modelled 62.7 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:styrene monooxygenase a;
PDBTitle: structure of the oxygenase component of a pseudomonas styrene2 monooxygenase
103c1f6mF_



not modelled 62.1 3 PDB header:oxidoreductase
Chain: F: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of a complex between thioredoxin2 reductase, thioredoxin, and the nadp+ analog, aadp+
104d2pkwa1



not modelled 62.0 29 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:YhiQ-like
105c2jb1B_



not modelled 61.4 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:l-amino acid oxidase;
PDBTitle: the l-amino acid oxidase from rhodococcus opacus in complex2 with l-alanine
106c2e1mA_



not modelled 61.4 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-glutamate oxidase;
PDBTitle: crystal structure of l-glutamate oxidase from streptomyces sp. x-119-6
107c2vdcI_



not modelled 61.4 16 PDB header:oxidoreductase
Chain: I: PDB Molecule:glutamate synthase [nadph] small chain;
PDBTitle: the 9.5 a resolution structure of glutamate synthase from2 cryo-electron microscopy and its oligomerization behavior3 in solution: functional implications.
108c1zx9A_



not modelled 61.3 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:mercuric reductase;
PDBTitle: crystal structure of tn501 mera
109c1a4iB_



not modelled 60.9 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase /
PDBTitle: human tetrahydrofolate dehydrogenase / cyclohydrolase
110c1bxgA_



not modelled 60.7 22 PDB header:amino acid dehydrogenase
Chain: A: PDB Molecule:phenylalanine dehydrogenase;
PDBTitle: phenylalanine dehydrogenase structure in ternary complex2 with nad+ and beta-phenylpropionate
111c3grfA_



not modelled 60.6 12 PDB header:transferase
Chain: A: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: x-ray structure of ornithine transcarbamoylase from giardia2 lamblia
112c2yg4B_



not modelled 60.4 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:putrescine oxidase;
PDBTitle: structure-based redesign of cofactor binding in putrescine2 oxidase: wild type bound to putrescine
113d1ps9a3



not modelled 60.2 10 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:N-terminal domain of adrenodoxin reductase-like
114c1vdcA_



not modelled 60.1 3 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dependent thioredoxin reductase;
PDBTitle: structure of nadph dependent thioredoxin reductase
115c3bkwB_



not modelled 60.0 16 PDB header:transferase
Chain: B: PDB Molecule:s-adenosylmethionine dependent methyltransferase;
PDBTitle: crystal structure of s-adenosylmethionine dependent methyltransferase2 (np_104914.1) from mesorhizobium loti at 1.60 a resolution
116c1sezA_



not modelled 59.9 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:protoporphyrinogen oxidase, mitochondrial;
PDBTitle: crystal structure of protoporphyrinogen ix oxidase
117c2a87A_



not modelled 59.8 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of m. tuberculosis thioredoxin reductase
118c2i0zA_



not modelled 59.6 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad(fad)-utilizing dehydrogenases;
PDBTitle: crystal structure of a fad binding protein from bacillus2 cereus, a putative nad(fad)-utilizing dehydrogenases
119c1yvvB_



not modelled 59.5 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:amine oxidase, flavin-containing;
PDBTitle: x-ray structurure of p. syringae q888a4 oxidoreductase at2 resolution 2.5a. northeast structural genomics consortium3 target psr10.
120c3f8rD_



not modelled 58.6 7 PDB header:oxidoreductase
Chain: D: PDB Molecule:thioredoxin reductase (trxb-3);
PDBTitle: crystal structure of sulfolobus solfataricus thioredoxin2 reductase b3 in complex with two nadp molecules

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
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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