Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP69902
DateThu Jan 5 12:12:16 GMT 2012
Unique Job IDa4eef21cbc4c2bd8

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1q7ea_
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%
409 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  MSTPLQGIKVLDFTGVQSGPSCTQMLAWFGADVIKIERPGVGDVTRHQLRDIPDIDALYF
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Disorder  ?????












































?








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   .........70.........80.........90.........100.........110.........120
Sequence  TMLNSNKRSIELNTKTAEGKEVMEKLIREADILVENFHPGAIDHMGFTWEHIQEINPRLI
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   .........130.........140.........150.........160.........170.........180
Sequence  FGSIKGFDECSPYVNVKAYENVAQAAGGAASTTGFWDGPPLVSAAALGDSNTGMHLLIGL
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   .........190.........200.........210.........220.........230.........240
Sequence  LAALLHREKTGRGQRVTMSMQDAVLNLCRVKLRDQQRLDKLGYLEEYPQYPNGTFGDAVP
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???????????????????

?
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   .........250.........260.........270.........280.........290.........300
Sequence  RGGNAGGGGQPGWILKCKGWETDPNAYIYFTIQEQNWENTCKAIGKPEWITDPAYSTAHA
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   .........310.........320.........330.........340.........350.........360
Sequence  RQPHIFDIFAEIEKYTVTIDKHEAVAYLTQFDIPCAPVLSMKEISLDPSLRQSGSVVEVE
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   .........370.........380.........390.........400.........410......
Sequence  QPLRGKYLTVGCPMKFSAFTPDIKAAPLLGEHTAAVLQELGYSDDEIAAMKQNHAI
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?
???




























????
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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 1q7e chain A

3D model

Region: 1 - 416
Aligned: 409
Modelled: 416
Confidence: 100.0%
Identity: 98%
Fold: CoA-transferase family III (CaiB/BaiF)
Superfamily: CoA-transferase family III (CaiB/BaiF)
Family: CoA-transferase family III (CaiB/BaiF)

Phyre2

PDB 2vjm chain A domain 1

3D model

Region: 2 - 416
Aligned: 415
Modelled: 415
Confidence: 100.0%
Identity: 60%
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 - 416
Aligned: 386
Modelled: 400
Confidence: 100.0%
Identity: 24%
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 - 416
Aligned: 386
Modelled: 400
Confidence: 100.0%
Identity: 24%
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: 2 - 401
Aligned: 351
Modelled: 361
Confidence: 100.0%
Identity: 26%
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: 3 - 396
Aligned: 347
Modelled: 367
Confidence: 100.0%
Identity: 24%
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: 5 - 126
Aligned: 107
Modelled: 107
Confidence: 95.0%
Identity: 18%
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 1ygy chain A domain 1

3D model

Region: 1 - 125
Aligned: 97
Modelled: 97
Confidence: 94.3%
Identity: 19%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 3kbo chain B

3D model

Region: 1 - 125
Aligned: 97
Modelled: 97
Confidence: 94.1%
Identity: 11%
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 2g76 chain A

3D model

Region: 1 - 125
Aligned: 97
Modelled: 97
Confidence: 93.9%
Identity: 11%
PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase

Phyre2

PDB 2dbq chain A

3D model

Region: 1 - 125
Aligned: 97
Modelled: 97
Confidence: 93.9%
Identity: 15%
PDB header:oxidoreductase
Chain: A: PDB Molecule:glyoxylate reductase;
PDBTitle: crystal structure of glyoxylate reductase (ph0597) from pyrococcus2 horikoshii ot3, complexed with nadp (i41)

Phyre2

PDB 1wwk chain A

3D model

Region: 1 - 125
Aligned: 97
Modelled: 97
Confidence: 93.9%
Identity: 13%
PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3

Phyre2

PDB 2dld chain A domain 1

3D model

Region: 1 - 125
Aligned: 96
Modelled: 96
Confidence: 93.8%
Identity: 15%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 1l7d chain A domain 1

3D model

Region: 2 - 125
Aligned: 103
Modelled: 103
Confidence: 93.8%
Identity: 17%
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: 4 - 128
Aligned: 93
Modelled: 113
Confidence: 93.5%
Identity: 31%
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 1gdh chain A domain 1

3D model

Region: 1 - 125
Aligned: 99
Modelled: 99
Confidence: 93.4%
Identity: 11%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 2nac chain A domain 1

3D model

Region: 1 - 125
Aligned: 92
Modelled: 92
Confidence: 93.4%
Identity: 17%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 1v8b chain A

3D model

Region: 4 - 127
Aligned: 93
Modelled: 112
Confidence: 93.1%
Identity: 20%
PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase

Phyre2

PDB 1qp8 chain A domain 1

3D model

Region: 5 - 125
Aligned: 89
Modelled: 89
Confidence: 93.0%
Identity: 24%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 3one chain A

3D model

Region: 5 - 128
Aligned: 93
Modelled: 112
Confidence: 92.9%
Identity: 27%
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
1

d1q7ea_
2

d2vjma1
3

d1xk7a1
4

c1xa3B_
5

d1x74a1
6

c2g04B_
7

c3p2yA_
8

d1ygya1
9

c3kboB_
10

c2g76A_
11

c2dbqA_
12

c1wwkA_
13

d2dlda1
14

d1l7da1
15

c3dhyC_
16

d1gdha1
17

d2naca1
18

c1v8bA_
19

d1qp8a1
20

c3oneA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1q7ea_



100.0 98 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
2d2vjma1



100.0 60 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
3d1xk7a1



100.0 24 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
4c1xa3B_



100.0 24 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 26 Fold:CoA-transferase family III (CaiB/BaiF)
Superfamily:CoA-transferase family III (CaiB/BaiF)
Family:CoA-transferase family III (CaiB/BaiF)
6c2g04B_



100.0 24 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_



95.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:alanine dehydrogenase/pyridine nucleotide transhydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase/pyridine nucleotide2 transhydrogenase from mycobacterium smegmatis
8d1ygya1



94.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
9c3kboB_



94.1 11 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
10c2g76A_



93.9 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase
11c2dbqA_



93.9 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:glyoxylate reductase;
PDBTitle: crystal structure of glyoxylate reductase (ph0597) from pyrococcus2 horikoshii ot3, complexed with nadp (i41)
12c1wwkA_



93.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3
13d2dlda1



93.8 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
14d1l7da1



93.8 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
15c3dhyC_



93.5 31 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
16d1gdha1



93.4 11 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
17d2naca1



93.4 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
18c1v8bA_



93.1 20 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
19d1qp8a1



93.0 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
20c3oneA_



92.9 27 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
21c2omeA_



not modelled 92.8 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:c-terminal-binding protein 2;
PDBTitle: crystal structure of human ctbp2 dehydrogenase complexed with nad(h)
22d1pjca1



not modelled 92.7 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
23c3gvpB_



not modelled 92.6 23 PDB header:hydrolase
Chain: B: PDB Molecule:adenosylhomocysteinase 3;
PDBTitle: human sahh-like domain of human adenosylhomocysteinase 3
24c2bruB_



not modelled 92.5 17 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
25c1gdhA_



not modelled 92.5 11 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
26c3bazA_



not modelled 92.4 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyphenylpyruvate reductase;
PDBTitle: structure of hydroxyphenylpyruvate reductase from coleus blumei in2 complex with nadp+
27d1dxya1



not modelled 92.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
28c1pjcA_



not modelled 92.1 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad
29d1j4aa1



not modelled 92.0 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
30c3gvxA_



not modelled 92.0 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerate dehydrogenase related protein;
PDBTitle: crystal structure of glycerate dehydrogenase related2 protein from thermoplasma acidophilum
31c2gcgB_



not modelled 91.5 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase
32d1mx3a1



not modelled 91.5 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
33c1luaA_



not modelled 91.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:methylene tetrahydromethanopterin dehydrogenase;
PDBTitle: structure of methylene-tetrahydromethanopterin dehydrogenase from2 methylobacterium extorquens am1 complexed with nadp
34c2rirA_



not modelled 90.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
35c2eklA_



not modelled 90.7 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: structure of st1218 protein from sulfolobus tokodaii
36c3hg7A_



not modelled 90.7 23 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
37c1l7eC_



not modelled 90.7 20 PDB header:oxidoreductase
Chain: C: PDB Molecule:nicotinamide nucleotide transhydrogenase,
PDBTitle: crystal structure of r. rubrum transhydrogenase domain i2 with bound nadh
38c2pi1C_



not modelled 90.5 15 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
39d1li4a1



not modelled 90.4 26 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
40c1j4aA_



not modelled 90.2 16 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
41c2cukC_



not modelled 90.2 20 PDB header:oxidoreductase
Chain: C: PDB Molecule:glycerate dehydrogenase/glyoxylate reductase;
PDBTitle: crystal structure of tt0316 protein from thermus thermophilus hb8
42c2eezG_



not modelled 90.0 19 PDB header:oxidoreductase
Chain: G: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase from themus thermophilus
43c3d64A_



not modelled 89.8 22 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei
44d1np3a2



not modelled 89.4 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
45d1m1na_



not modelled 88.9 19 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:Nitrogenase iron-molybdenum protein
46c2j6iC_



not modelled 88.3 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:formate dehydrogenase;
PDBTitle: candida boidinii formate dehydrogenase (fdh) c-terminal2 mutant
47d1to3a_



not modelled 87.2 36 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
48c3evtA_



not modelled 87.2 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from2 lactobacillus plantarum
49d1pg5a2



not modelled 87.0 14 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
50c3d4oA_



not modelled 86.8 16 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
51c1xdwA_



not modelled 86.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad+-dependent (r)-2-hydroxyglutarate
PDBTitle: nad+-dependent (r)-2-hydroxyglutarate dehydrogenase from2 acidaminococcus fermentans
52c2xdoC_



not modelled 86.3 25 PDB header:oxidoreductase
Chain: C: PDB Molecule:tetx2 protein;
PDBTitle: structure of the tetracycline degrading monooxygenase tetx2 from2 bacteroides thetaiotaomicron
53c1d4fD_



not modelled 86.1 26 PDB header:hydrolase
Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase;
PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
54c2vhyB_



not modelled 85.4 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of apo l-alanine dehydrogenase from2 mycobacterium tuberculosis
55c3gg9C_



not modelled 85.1 18 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
56c2p2gD_



not modelled 84.9 10 PDB header:transferase
Chain: D: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: crystal structure of ornithine carbamoyltransferase from mycobacterium2 tuberculosis (rv1656): orthorhombic form
57c1qp8A_



not modelled 84.9 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase;
PDBTitle: crystal structure of a putative formate dehydrogenase from2 pyrobaculum aerophilum
58d1vlva2



not modelled 84.6 14 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
59c1np3B_



not modelled 83.3 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
60c3n58D_



not modelled 82.8 26 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
61d1sc6a1



not modelled 81.6 10 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
62c3n7uD_



not modelled 81.4 15 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
63d1v8ba1



not modelled 80.0 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
64c3pdiG_



not modelled 79.9 22 PDB header:protein binding
Chain: G: PDB Molecule:nitrogenase mofe cofactor biosynthesis protein nife;
PDBTitle: precursor bound nifen
65c1u5tA_



not modelled 79.8 14 PDB header:transport protein
Chain: A: PDB Molecule:appears to be functionally related to snf7;
PDBTitle: structure of the escrt-ii endosomal trafficking complex
66c1ygyA_



not modelled 77.8 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of d-3-phosphoglycerate dehydrogenase from2 mycobacterium tuberculosis
67d1dxha2



not modelled 77.4 18 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
68d2nqra3



not modelled 77.0 18 Fold:Molybdenum cofactor biosynthesis proteins
Superfamily:Molybdenum cofactor biosynthesis proteins
Family:MoeA central domain-like
69d1ekxa2



not modelled 76.8 16 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
70d1li4a2



not modelled 76.7 24 Fold:Flavodoxin-like
Superfamily:Formate/glycerate dehydrogenase catalytic domain-like
Family:S-adenosylhomocystein hydrolase
71d1qh8a_



not modelled 76.4 18 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:Nitrogenase iron-molybdenum protein
72d1u7za_



not modelled 75.9 21 Fold:Ribokinase-like
Superfamily:CoaB-like
Family:CoaB-like
73c2vouA_



not modelled 75.6 33 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,6-dihydroxypyridine hydroxylase;
PDBTitle: structure of 2,6-dihydroxypyridine-3-hydroxylase from2 arthrobacter nicotinovorans
74c2qjhH_



not modelled 74.9 30 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
75d1v8ba2



not modelled 74.6 17 Fold:Flavodoxin-like
Superfamily:Formate/glycerate dehydrogenase catalytic domain-like
Family:S-adenosylhomocystein hydrolase
76c3nlcA_



not modelled 74.5 23 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
77c2w2kB_



not modelled 73.4 12 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.
78c1dxyA_



not modelled 72.2 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-2-hydroxyisocaproate dehydrogenase;
PDBTitle: structure of d-2-hydroxyisocaproate dehydrogenase
79c3allA_



not modelled 71.8 23 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
80c2aczA_



not modelled 71.7 11 PDB header:oxidoreductase/electron transport
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: complex ii (succinate dehydrogenase) from e. coli with atpenin a52 inhibitor co-crystallized at the ubiquinone binding site
81d1seza1



not modelled 71.5 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
82d1c1da1



not modelled 71.0 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
83c1qo8A_



not modelled 70.8 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase
84c2d0iC_



not modelled 70.5 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure ph0520 protein from pyrococcus horikoshii ot3
85c2vdcI_



not modelled 70.0 13 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.
86c2xagA_



not modelled 68.5 34 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
87c2v1dA_



not modelled 68.5 34 PDB header:oxidoreductase/repressor
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: structural basis of lsd1-corest selectivity in histone h32 recognition
88c1f8sA_



not modelled 68.3 27 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.
89c1jrxA_



not modelled 67.7 30 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c;
PDBTitle: crystal structure of arg402ala mutant flavocytochrome c32 from shewanella frigidimarina
90c3ka7A_



not modelled 66.6 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase;
PDBTitle: crystal structure of an oxidoreductase from methanosarcina2 mazei. northeast structural genomics consortium target id3 mar208
91d2dw4a2



not modelled 66.5 34 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
92d1uz5a3



not modelled 65.9 22 Fold:Molybdenum cofactor biosynthesis proteins
Superfamily:Molybdenum cofactor biosynthesis proteins
Family:MoeA central domain-like
93d1i8ta1



not modelled 65.2 20 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:UDP-galactopyranose mutase, N-terminal domain
94c3d8xB_



not modelled 65.0 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:thioredoxin reductase 1;
PDBTitle: crystal structure of saccharomyces cerevisiae nadph dependent2 thioredoxin reductase 1
95c1d4cB_



not modelled 63.9 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
96c2nacA_



not modelled 63.1 16 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
97c2jb1B_



not modelled 62.3 23 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
98d1ml4a2



not modelled 61.9 14 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
99c1zx9A_



not modelled 61.8 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:mercuric reductase;
PDBTitle: crystal structure of tn501 mera
100c1f6mF_



not modelled 61.2 17 PDB header:oxidoreductase
Chain: F: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of a complex between thioredoxin2 reductase, thioredoxin, and the nadp+ analog, aadp+
101d1duvg2



not modelled 60.9 14 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
102c3i3lA_



not modelled 60.1 31 PDB header:hydrolase
Chain: A: PDB Molecule:alkylhalidase cmls;
PDBTitle: crystal structure of cmls, a flavin-dependent halogenase
103c1vdcA_



not modelled 59.3 7 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dependent thioredoxin reductase;
PDBTitle: structure of nadph dependent thioredoxin reductase
104c2e1mA_



not modelled 59.1 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-glutamate oxidase;
PDBTitle: crystal structure of l-glutamate oxidase from streptomyces sp. x-119-6
105c1sezA_



not modelled 58.9 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:protoporphyrinogen oxidase, mitochondrial;
PDBTitle: crystal structure of protoporphyrinogen ix oxidase
106c1yvvB_



not modelled 58.5 19 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.
107c2a87A_



not modelled 58.3 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of m. tuberculosis thioredoxin reductase
108c2yg4B_



not modelled 58.0 27 PDB header:oxidoreductase
Chain: B: PDB Molecule:putrescine oxidase;
PDBTitle: structure-based redesign of cofactor binding in putrescine2 oxidase: wild type bound to putrescine
109c2hkoA_



not modelled 57.6 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: crystal structure of lsd1
110d1g6q1_



not modelled 57.6 27 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:Arginine methyltransferase
111c3ihmB_



not modelled 57.4 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:styrene monooxygenase a;
PDBTitle: structure of the oxygenase component of a pseudomonas styrene2 monooxygenase
112c2gk4A_



not modelled 57.3 15 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
113c3f8rD_



not modelled 57.1 10 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
114d1neka2



not modelled 56.7 11 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
115d2naca2



not modelled 56.6 15 Fold:Flavodoxin-like
Superfamily:Formate/glycerate dehydrogenase catalytic domain-like
Family:Formate/glycerate dehydrogenases, substrate-binding domain
116c1ybaC_



not modelled 56.3 11 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: the active form of phosphoglycerate dehydrogenase
117c2r6zA_



not modelled 56.0 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
118d2ivda1



not modelled 55.8 26 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
119c3ctyA_



not modelled 55.7 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of t. acidophilum thioredoxin reductase
120c2g4rB_



not modelled 55.5 16 PDB header:biosynthetic protein
Chain: B: PDB Molecule:molybdopterin biosynthesis mog protein;
PDBTitle: anomalous substructure of moga

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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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