Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP30138
DateThu Jan 5 11:45:56 GMT 2012
Unique Job ID8e8e885934f76fc6

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1zfnA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif
Confidence and coverage
Confidence:100.0% Coverage: 97%
244 residues ( 97% 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  MNDRDFMRYSRQILLDDIALDGQQKLLDSQVLIIGLGGLGTPAALYLAGAGVGTLVLADD
Secondary structure 

















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Disorder  ??

























































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   .........70.........80.........90.........100.........110.........120
Sequence  DDVHLSNLQRQILFTTEDIDRPKSQVSQQRLTQLNPDIQLTALQQRLTGEALKDAVARAD
Secondary structure 























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   .........130.........140.........150.........160.........170.........180
Sequence  VVLDCTDNMATRQEINAACVALNTPLITASAVGFGGQLMVLTPPWEQGCYRCLWPDNQEP
Secondary structure 






















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???
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   .........190.........200.........210.........220.........230.........240
Sequence  ERNCRTAGVVGPVVGVMGTLQALEAIKLLSGIETPAGELRLFDGKSSQWRSLALRRASGC
Secondary structure 



























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Disorder  ?????







































??





?





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   .........250.
Sequence  PVCGGSNADPV
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 1zfn chain A

3D model

Region: 1 - 244
Aligned: 244
Modelled: 244
Confidence: 100.0%
Identity: 100%
PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif

Phyre2

PDB 1jw9 chain B

3D model

Region: 1 - 244
Aligned: 237
Modelled: 244
Confidence: 100.0%
Identity: 46%
Fold: Activating enzymes of the ubiquitin-like proteins
Superfamily: Activating enzymes of the ubiquitin-like proteins
Family: Molybdenum cofactor biosynthesis protein MoeB

Phyre2

PDB 3h9g chain A

3D model

Region: 2 - 244
Aligned: 243
Modelled: 243
Confidence: 100.0%
Identity: 27%
PDB header:transferase/antibiotic
Chain: A: PDB Molecule:mccb protein;
PDBTitle: crystal structure of e. coli mccb + mcca-n7isoasn

Phyre2

PDB 1yov chain B domain 1

3D model

Region: 8 - 246
Aligned: 235
Modelled: 239
Confidence: 100.0%
Identity: 27%
Fold: Activating enzymes of the ubiquitin-like proteins
Superfamily: Activating enzymes of the ubiquitin-like proteins
Family: Ubiquitin activating enzymes (UBA)

Phyre2

PDB 3gzn chain B

3D model

Region: 8 - 247
Aligned: 237
Modelled: 240
Confidence: 100.0%
Identity: 25%
PDB header:protein binding/ligase
Chain: B: PDB Molecule:nedd8-activating enzyme e1 catalytic subunit;
PDBTitle: structure of nedd8-activating enzyme in complex with nedd82 and mln4924

Phyre2

PDB 3vh3 chain A

3D model

Region: 1 - 244
Aligned: 243
Modelled: 244
Confidence: 100.0%
Identity: 21%
PDB header:metal binding protein/protein transport
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of atg7ctd-atg8 complex

Phyre2

PDB 1y8q chain A

3D model

Region: 1 - 236
Aligned: 233
Modelled: 236
Confidence: 100.0%
Identity: 24%
PDB header:ligase
Chain: A: PDB Molecule:ubiquitin-like 1 activating enzyme e1a;
PDBTitle: sumo e1 activating enzyme sae1-sae2-mg-atp complex

Phyre2

PDB 2nvu chain B

3D model

Region: 23 - 247
Aligned: 223
Modelled: 225
Confidence: 100.0%
Identity: 30%
PDB header:protein turnover, ligase
Chain: B: PDB Molecule:maltose binding protein/nedd8-activating enzyme
PDBTitle: structure of appbp1-uba3~nedd8-nedd8-mgatp-ubc12(c111a), a2 trapped ubiquitin-like protein activation complex

Phyre2

PDB 3kyd chain B

3D model

Region: 14 - 246
Aligned: 230
Modelled: 233
Confidence: 100.0%
Identity: 28%
PDB header:ligase
Chain: B: PDB Molecule:sumo-activating enzyme subunit 2;
PDBTitle: human sumo e1~sumo1-amp tetrahedral intermediate mimic

Phyre2

PDB 3vh1 chain A

3D model

Region: 14 - 244
Aligned: 225
Modelled: 226
Confidence: 100.0%
Identity: 24%
PDB header:metal binding protein
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of saccharomyces cerevisiae atg7 (1-595)

Phyre2

PDB 1y8q chain D

3D model

Region: 14 - 246
Aligned: 230
Modelled: 233
Confidence: 100.0%
Identity: 25%
PDB header:ligase
Chain: D: PDB Molecule:ubiquitin-like 2 activating enzyme e1b;
PDBTitle: sumo e1 activating enzyme sae1-sae2-mg-atp complex

Phyre2

PDB 3cmm chain A

3D model

Region: 8 - 211
Aligned: 199
Modelled: 204
Confidence: 100.0%
Identity: 27%
PDB header:ligase/protein binding
Chain: A: PDB Molecule:ubiquitin-activating enzyme e1 1;
PDBTitle: crystal structure of the uba1-ubiquitin complex

Phyre2

PDB 3guc chain B

3D model

Region: 24 - 244
Aligned: 208
Modelled: 221
Confidence: 100.0%
Identity: 21%
PDB header:transferase
Chain: B: PDB Molecule:ubiquitin-like modifier-activating enzyme 5;
PDBTitle: human ubiquitin-activating enzyme 5 in complex with amppnp

Phyre2

PDB 1yov chain A domain 1

3D model

Region: 7 - 163
Aligned: 155
Modelled: 157
Confidence: 100.0%
Identity: 19%
Fold: Activating enzymes of the ubiquitin-like proteins
Superfamily: Activating enzymes of the ubiquitin-like proteins
Family: Ubiquitin activating enzymes (UBA)

Phyre2

PDB 1e5l chain A

3D model

Region: 27 - 152
Aligned: 99
Modelled: 107
Confidence: 98.1%
Identity: 21%
PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea

Phyre2

PDB 1pjq chain A domain 1

3D model

Region: 26 - 146
Aligned: 91
Modelled: 96
Confidence: 98.1%
Identity: 22%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Siroheme synthase N-terminal domain-like

Phyre2

PDB 2axq chain A

3D model

Region: 29 - 152
Aligned: 97
Modelled: 98
Confidence: 98.1%
Identity: 23%
PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae

Phyre2

PDB 1vi2 chain A domain 1

3D model

Region: 26 - 126
Aligned: 82
Modelled: 82
Confidence: 98.0%
Identity: 20%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 3ic5 chain A

3D model

Region: 30 - 152
Aligned: 96
Modelled: 97
Confidence: 97.9%
Identity: 21%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.

Phyre2

PDB 2nlo chain A

3D model

Region: 26 - 126
Aligned: 78
Modelled: 82
Confidence: 97.8%
Identity: 31%
PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of the quinate dehydrogenase from corynebacterium2 glutamicum

Phyre2
1

c1zfnA_
2

d1jw9b_
3

c3h9gA_
4

d1yovb1
5

c3gznB_
6

c3vh3A_
7

c1y8qA_
8

c2nvuB_
9

c3kydB_
10

c3vh1A_
11

c1y8qD_
12

c3cmmA_
13

c3gucB_
14

d1yova1
15

c1e5lA_
16

d1pjqa1
17

c2axqA_
18

d1vi2a1
19

c3ic5A_
20

c2nloA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1zfnA_



100.0 100 PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif
2d1jw9b_



100.0 46 Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Molybdenum cofactor biosynthesis protein MoeB
3c3h9gA_



100.0 27 PDB header:transferase/antibiotic
Chain: A: PDB Molecule:mccb protein;
PDBTitle: crystal structure of e. coli mccb + mcca-n7isoasn
4d1yovb1



100.0 27 Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Ubiquitin activating enzymes (UBA)
5c3gznB_



100.0 25 PDB header:protein binding/ligase
Chain: B: PDB Molecule:nedd8-activating enzyme e1 catalytic subunit;
PDBTitle: structure of nedd8-activating enzyme in complex with nedd82 and mln4924
6c3vh3A_



100.0 21 PDB header:metal binding protein/protein transport
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of atg7ctd-atg8 complex
7c1y8qA_



100.0 24 PDB header:ligase
Chain: A: PDB Molecule:ubiquitin-like 1 activating enzyme e1a;
PDBTitle: sumo e1 activating enzyme sae1-sae2-mg-atp complex
8c2nvuB_



100.0 30 PDB header:protein turnover, ligase
Chain: B: PDB Molecule:maltose binding protein/nedd8-activating enzyme
PDBTitle: structure of appbp1-uba3~nedd8-nedd8-mgatp-ubc12(c111a), a2 trapped ubiquitin-like protein activation complex
9c3kydB_



100.0 28 PDB header:ligase
Chain: B: PDB Molecule:sumo-activating enzyme subunit 2;
PDBTitle: human sumo e1~sumo1-amp tetrahedral intermediate mimic
10c3vh1A_



100.0 24 PDB header:metal binding protein
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of saccharomyces cerevisiae atg7 (1-595)
11c1y8qD_



100.0 25 PDB header:ligase
Chain: D: PDB Molecule:ubiquitin-like 2 activating enzyme e1b;
PDBTitle: sumo e1 activating enzyme sae1-sae2-mg-atp complex
12c3cmmA_



100.0 27 PDB header:ligase/protein binding
Chain: A: PDB Molecule:ubiquitin-activating enzyme e1 1;
PDBTitle: crystal structure of the uba1-ubiquitin complex
13c3gucB_



100.0 21 PDB header:transferase
Chain: B: PDB Molecule:ubiquitin-like modifier-activating enzyme 5;
PDBTitle: human ubiquitin-activating enzyme 5 in complex with amppnp
14d1yova1



100.0 19 Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Ubiquitin activating enzymes (UBA)
15c1e5lA_



98.1 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea
16d1pjqa1



98.1 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
17c2axqA_



98.1 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae
18d1vi2a1



98.0 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
19c3ic5A_



97.9 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
20c2nloA_



97.8 31 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of the quinate dehydrogenase from corynebacterium2 glutamicum
21c1vi2B_



not modelled 97.8 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate 5-dehydrogenase 2;
PDBTitle: crystal structure of shikimate-5-dehydrogenase with nad
22d1pzga1



not modelled 97.8 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
23c3tozA_



not modelled 97.7 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: 2.2 angstrom crystal structure of shikimate 5-dehydrogenase from2 listeria monocytogenes in complex with nad.
24c2hjrK_



not modelled 97.7 24 PDB header:oxidoreductase
Chain: K: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of cryptosporidium parvum malate2 dehydrogenase
25c1pjtB_



not modelled 97.7 21 PDB header:transferase/oxidoreductase/lyase
Chain: B: PDB Molecule:siroheme synthase;
PDBTitle: the structure of the ser128ala point-mutant variant of cysg,2 the multifunctional3 methyltransferase/dehydrogenase/ferrochelatase for4 siroheme synthesis
26d1e5qa1



not modelled 97.6 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
27c2z2vA_



not modelled 97.6 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1688;
PDBTitle: crystal structure of l-lysine dehydrogenase from2 hyperthermophilic archaeon pyrococcus horikoshii
28c1gpjA_



not modelled 97.6 30 PDB header:reductase
Chain: A: PDB Molecule:glutamyl-trna reductase;
PDBTitle: glutamyl-trna reductase from methanopyrus kandleri
29d9ldta1



not modelled 97.6 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
30d1np3a2



not modelled 97.5 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
31c3pgjB_



not modelled 97.5 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: 2.49 angstrom resolution crystal structure of shikimate 5-2 dehydrogenase (aroe) from vibrio cholerae o1 biovar eltor str. n169613 in complex with shikimate
32c1u4sA_



not modelled 97.5 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: plasmodium falciparum lactate dehydrogenase complexed with 2,6-2 naphthalenedisulphonic acid
33c2fnzA_



not modelled 97.5 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:lactate dehydrogenase;
PDBTitle: crystal structure of the lactate dehydrogenase from cryptosporidium2 parvum complexed with cofactor (b-nicotinamide adenine dinucleotide)3 and inhibitor (oxamic acid)
34c2eggA_



not modelled 97.5 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5-dehydrogenase;
PDBTitle: crystal structure of shikimate 5-dehydrogenase (aroe) from2 geobacillus kaustophilus
35c1pzfD_



not modelled 97.4 20 PDB header:oxidoreductase
Chain: D: PDB Molecule:lactate dehydrogenase;
PDBTitle: t.gondii ldh1 ternary complex with apad+ and oxalate
36d1uxja1



not modelled 97.4 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
37d1t2da1



not modelled 97.4 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
38d1i0za1



not modelled 97.4 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
39c1bg6A_



not modelled 97.4 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:n-(1-d-carboxylethyl)-l-norvaline dehydrogenase;
PDBTitle: crystal structure of the n-(1-d-carboxylethyl)-l-norvaline2 dehydrogenase from arthrobacter sp. strain 1c
40c3o8qB_



not modelled 97.4 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate 5-dehydrogenase i alpha;
PDBTitle: 1.45 angstrom resolution crystal structure of shikimate 5-2 dehydrogenase (aroe) from vibrio cholerae
41c1ur5C_



not modelled 97.4 22 PDB header:oxidoreductase
Chain: C: PDB Molecule:malate dehydrogenase;
PDBTitle: stabilization of a tetrameric malate dehydrogenase by2 introduction of a disulfide bridge at the dimer/dimer3 interface
42d1gpja2



not modelled 97.4 30 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
43c2g1uA_



not modelled 97.4 20 PDB header:transport protein
Chain: A: PDB Molecule:hypothetical protein tm1088a;
PDBTitle: crystal structure of a putative transport protein (tm1088a) from2 thermotoga maritima at 1.50 a resolution
44c2d0iC_



not modelled 97.4 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure ph0520 protein from pyrococcus horikoshii ot3
45c3u62A_



not modelled 97.3 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from thermotoga maritima
46c2ew2B_



not modelled 97.3 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-dehydropantoate 2-reductase, putative;
PDBTitle: crystal structure of the putative 2-dehydropantoate 2-reductase from2 enterococcus faecalis
47c3d1lB_



not modelled 97.3 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nadp oxidoreductase bf3122;
PDBTitle: crystal structure of putative nadp oxidoreductase bf3122 from2 bacteroides fragilis
48c3dfzB_



not modelled 97.3 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:precorrin-2 dehydrogenase;
PDBTitle: sirc, precorrin-2 dehydrogenase
49d1lssa_



not modelled 97.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
50c3n7uD_



not modelled 97.3 16 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
51c3donA_



not modelled 97.3 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from staphylococcus2 epidermidis
52d1kyqa1



not modelled 97.3 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
53c3eywA_



not modelled 97.2 24 PDB header:transport protein
Chain: A: PDB Molecule:c-terminal domain of glutathione-regulated potassium-efflux
PDBTitle: crystal structure of the c-terminal domain of e. coli kefc in complex2 with keff
54d1pjca1



not modelled 97.2 32 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
55c1np3B_



not modelled 97.2 26 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
56c1z82A_



not modelled 97.2 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: crystal structure of glycerol-3-phosphate dehydrogenase (tm0378) from2 thermotoga maritima at 2.00 a resolution
57c3gviB_



not modelled 97.2 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of lactate/malate dehydrogenase from2 brucella melitensis in complex with adp
58c1m67A_



not modelled 97.2 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: crystal structure of leishmania mexicana gpdh complexed with inhibitor2 2-bromo-6-hydroxy-purine
59d5ldha1



not modelled 97.2 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
60c3k96B_



not modelled 97.2 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad(p)+];
PDBTitle: 2.1 angstrom resolution crystal structure of glycerol-3-phosphate2 dehydrogenase (gpsa) from coxiella burnetii
61d2pgda2



not modelled 97.2 11 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
62d1nvta1



not modelled 97.1 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
63d1ldna1



not modelled 97.1 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
64d1i10a1



not modelled 97.1 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
65c3pwzA_



not modelled 97.1 32 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase 3;
PDBTitle: crystal structure of an ael1 enzyme from pseudomonas putida
66c1ldbA_



not modelled 97.1 22 PDB header:oxidoreductase(choh(d)-nad(a))
Chain: A: PDB Molecule:apo-l-lactate dehydrogenase;
PDBTitle: structure determination and refinement of bacillus2 stearothermophilus lactate dehydrogenase
67c1wpqB_



not modelled 97.1 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad+],
PDBTitle: ternary complex of glycerol 3-phosphate dehydrogenase 12 with nad and dihydroxyactone
68d1n1ea2



not modelled 97.1 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
69c3llvA_



not modelled 97.1 14 PDB header:nad(p) binding protein
Chain: A: PDB Molecule:exopolyphosphatase-related protein;
PDBTitle: the crystal structure of the nad(p)-binding domain of an2 exopolyphosphatase-related protein from archaeoglobus fulgidus to3 1.7a
70d1bg6a2



not modelled 97.1 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
71d2hmva1



not modelled 97.1 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
72d2ldxa1



not modelled 97.0 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
73c1wwkA_



not modelled 97.0 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3
74c3nzoB_



not modelled 97.0 13 PDB header:lyase
Chain: B: PDB Molecule:udp-n-acetylglucosamine 4,6-dehydratase;
PDBTitle: udp-n-acetylglucosamine 4,6-dehydratase from vibrio fischeri.
75c2d4aC_



not modelled 97.0 20 PDB header:oxidoreductase
Chain: C: PDB Molecule:malate dehydrogenase;
PDBTitle: structure of the malate dehydrogenase from aeropyrum pernix
76c1hyhA_



not modelled 97.0 27 PDB header:oxidoreductase (choh(d)-nad+(a))
Chain: A: PDB Molecule:l-2-hydroxyisocaproate dehydrogenase;
PDBTitle: crystal structure of l-2-hydroxyisocaproate dehydrogenase from2 lactobacillus confusus at 2.2 angstroms resolution-an example of3 strong asymmetry between subunits
77c1gv1D_



not modelled 97.0 23 PDB header:oxidoreductase
Chain: D: PDB Molecule:malate dehydrogenase;
PDBTitle: structural basis for thermophilic protein stability:2 structures of thermophilic and mesophilic malate3 dehydrogenases
78c8ldhA_



not modelled 97.0 14 PDB header:oxidoreductase(choh(d)-nad(a))
Chain: A: PDB Molecule:m4 apo-lactate dehydrogenase;
PDBTitle: refined crystal structure of dogfish m4 apo-lactate2 dehydrogenase
79c3cumA_



not modelled 97.0 31 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of a possible 3-hydroxyisobutyrate dehydrogenase2 from pseudomonas aeruginosa pao1
80c1kyqC_



not modelled 97.0 16 PDB header:oxidoreductase, lyase
Chain: C: PDB Molecule:siroheme biosynthesis protein met8;
PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis.
81c2dfdD_



not modelled 97.0 34 PDB header:oxidoreductase
Chain: D: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of human malate dehydrogenase type 2
82c3pqeD_



not modelled 97.0 24 PDB header:oxidoreductase
Chain: D: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: crystal structure of l-lactate dehydrogenase from bacillus subtilis2 with h171c mutation
83c2ldxA_



not modelled 96.9 22 PDB header:oxidoreductase(choh(d)-nad(a))
Chain: A: PDB Molecule:apo-lactate dehydrogenase;
PDBTitle: characterization of the antigenic sites on the refined 3-2 angstroms resolution structure of mouse testicular lactate3 dehydrogenase c4
84c3k6jA_



not modelled 96.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein f01g10.3, confirmed by transcript evidence;
PDBTitle: crystal structure of the dehydrogenase part of multifuctional enzyme 12 from c.elegans
85c2ph5A_



not modelled 96.9 13 PDB header:transferase
Chain: A: PDB Molecule:homospermidine synthase;
PDBTitle: crystal structure of the homospermidine synthase hss from legionella2 pneumophila in complex with nad, northeast structural genomics target3 lgr54
86c1pgqA_



not modelled 96.9 9 PDB header:oxidoreductase (choh(d)-nadp+(a))
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase;
PDBTitle: crystallographic study of coenzyme, coenzyme analogue and substrate2 binding in 6-phosphogluconate dehydrogenase: implications for nadp3 specificity and the enzyme mechanism
87c1txgA_



not modelled 96.9 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad(p)+];
PDBTitle: structure of glycerol-3-phosphate dehydrogenase from archaeoglobus2 fulgidus
88c2nacA_



not modelled 96.9 14 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
89d1llda1



not modelled 96.9 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
90c3hwrA_



not modelled 96.9 28 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-dehydropantoate 2-reductase;
PDBTitle: crystal structure of pane/apba family ketopantoate reductase2 (yp_299159.1) from ralstonia eutropha jmp134 at 2.15 a resolution
91d1obba1



not modelled 96.9 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
92c2ofpB_



not modelled 96.9 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketopantoate reductase;
PDBTitle: crystal structure of escherichia coli ketopantoate2 reductase in a ternary complex with nadp+ and pantoate
93d1hyha1



not modelled 96.9 32 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
94c3evtA_



not modelled 96.9 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from2 lactobacillus plantarum
95c3djeA_



not modelled 96.9 38 PDB header:oxidoreductase
Chain: A: PDB Molecule:fructosyl amine: oxygen oxidoreductase;
PDBTitle: crystal structure of the deglycating enzyme fructosamine2 oxidase from aspergillus fumigatus (amadoriase ii) in3 complex with fsa
96c1a5zA_



not modelled 96.9 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: lactate dehydrogenase from thermotoga maritima (tmldh)
97d1s6ya1



not modelled 96.9 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
98c1ojuA_



not modelled 96.9 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: 2.8 a resolution structure of malate dehydrogenase from2 archaeoglobus fulgidus in complex with etheno-nad.
99c2gcgB_



not modelled 96.9 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase
100d1gtea4



not modelled 96.8 8 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:N-terminal domain of adrenodoxin reductase-like
101d1u8xx1



not modelled 96.8 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
102c3d0oA_



not modelled 96.8 28 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase 1;
PDBTitle: crystal structure of lactate dehydrogenase from2 staphylococcus aureus
103c1pj6A_



not modelled 96.8 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:n,n-dimethylglycine oxidase;
PDBTitle: crystal structure of dimethylglycine oxidase of arthrobacter2 globiformis in complex with folic acid
104c2dbqA_



not modelled 96.8 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:glyoxylate reductase;
PDBTitle: crystal structure of glyoxylate reductase (ph0597) from pyrococcus2 horikoshii ot3, complexed with nadp (i41)
105c1nvtA_



not modelled 96.8 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5'-dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase (aroe or2 mj1084) in complex with nadp+
106c2e37B_



not modelled 96.8 27 PDB header:oxidoreductase
Chain: B: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: structure of tt0471 protein from thermus thermophilus
107c2v65A_



not modelled 96.8 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase a chain;
PDBTitle: apo ldh from the psychrophile c. gunnari
108d1txga2



not modelled 96.8 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
109c1mldA_



not modelled 96.8 33 PDB header:oxidoreductase(nad(a)-choh(d))
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: refined structure of mitochondrial malate dehydrogenase2 from porcine heart and the consensus structure for3 dicarboxylic acid oxidoreductases
110d1ojua1



not modelled 96.8 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
111c3fi9B_



not modelled 96.8 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of malate dehydrogenase from porphyromonas2 gingivalis
112c2g76A_



not modelled 96.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase
113c3qhaB_



not modelled 96.7 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase from mycobacterium2 avium 104
114c2cukC_



not modelled 96.7 21 PDB header:oxidoreductase
Chain: C: PDB Molecule:glycerate dehydrogenase/glyoxylate reductase;
PDBTitle: crystal structure of tt0316 protein from thermus thermophilus hb8
115d1ldma1



not modelled 96.7 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
116c1lldA_



not modelled 96.7 18 PDB header:oxidoreductase(choh (d)-nad (a))
Chain: A: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: molecular basis of allosteric activation of bacterial l-lactate2 dehydrogenase
117c1ks9A_



not modelled 96.7 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-dehydropantoate 2-reductase;
PDBTitle: ketopantoate reductase from escherichia coli
118d2jfga1



not modelled 96.7 20 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
119c1pgjA_



not modelled 96.7 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase;
PDBTitle: x-ray structure of 6-phosphogluconate dehydrogenase from the protozoan2 parasite t. brucei
120c2iz1C_



not modelled 96.7 14 PDB header:oxidoreductase
Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating;
PDBTitle: 6pdh complexed with pex inhibitor synchrotron data

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