Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP12282
DateThu Jan 5 11:33:08 GMT 2012
Unique Job ID02640e66b766657a

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1jw9b_
Top template information
Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Molybdenum cofactor biosynthesis protein MoeB
Confidence and coverage
Confidence:100.0% Coverage: 96%
240 residues ( 96% 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  MAELSDQEMLRYNRQIILRGFDFDGQEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTL
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Disorder  ?????






















































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   .........70.........80.........90.........100.........110.........120
Sequence  LDFDTVSLSNLQRQTLHSDATVGQPKVESARDALTRINPHIAITPVNALLDDAELAALIA
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   .........130.........140.........150.........160.........170.........180
Sequence  EHDLVLDCTDNVAVRNQLNAGCFAAKVPLVSGAAIRMEGQITVFTYQDGEPCYRCLSRLF
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   .........190.........200.........210.........220.........230.........240
Sequence  GENALTCVEAGVMAPLIGVIGSLQAMEAIKMLAGYGKPASGKIVMYDAMTCQFREMKLMR
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Disorder 
???????








































??





?

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   .........
Sequence  NPGCEVCGQ
Secondary structure 








SS confidence 








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 1jw9 chain B

3D model

Region: 2 - 248
Aligned: 240
Modelled: 247
Confidence: 100.0%
Identity: 100%
Fold: Activating enzymes of the ubiquitin-like proteins
Superfamily: Activating enzymes of the ubiquitin-like proteins
Family: Molybdenum cofactor biosynthesis protein MoeB

Phyre2

PDB 1zfn chain A

3D model

Region: 4 - 248
Aligned: 244
Modelled: 245
Confidence: 100.0%
Identity: 45%
PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif

Phyre2

PDB 3h9g chain A

3D model

Region: 3 - 248
Aligned: 246
Modelled: 246
Confidence: 100.0%
Identity: 25%
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: 11 - 249
Aligned: 235
Modelled: 239
Confidence: 100.0%
Identity: 25%
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: 11 - 249
Aligned: 236
Modelled: 239
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 - 249
Aligned: 248
Modelled: 249
Confidence: 100.0%
Identity: 26%
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 2nvu chain B

3D model

Region: 26 - 249
Aligned: 222
Modelled: 224
Confidence: 100.0%
Identity: 26%
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: 17 - 249
Aligned: 230
Modelled: 233
Confidence: 100.0%
Identity: 32%
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: 16 - 249
Aligned: 228
Modelled: 232
Confidence: 100.0%
Identity: 27%
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: 19 - 249
Aligned: 230
Modelled: 231
Confidence: 100.0%
Identity: 32%
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 1y8q chain A

3D model

Region: 4 - 240
Aligned: 233
Modelled: 237
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 3cmm chain A

3D model

Region: 11 - 187
Aligned: 174
Modelled: 177
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: 27 - 249
Aligned: 209
Modelled: 216
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: 10 - 166
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: 31 - 155
Aligned: 98
Modelled: 106
Confidence: 98.1%
Identity: 24%
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: 29 - 149
Aligned: 91
Modelled: 96
Confidence: 98.1%
Identity: 25%
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: 32 - 155
Aligned: 97
Modelled: 98
Confidence: 98.1%
Identity: 21%
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: 29 - 129
Aligned: 82
Modelled: 82
Confidence: 98.0%
Identity: 22%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 2nlo chain A

3D model

Region: 29 - 129
Aligned: 78
Modelled: 82
Confidence: 97.9%
Identity: 33%
PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of the quinate dehydrogenase from corynebacterium2 glutamicum

Phyre2

PDB 3ic5 chain A

3D model

Region: 33 - 155
Aligned: 96
Modelled: 97
Confidence: 97.9%
Identity: 23%
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
1

d1jw9b_
2

c1zfnA_
3

c3h9gA_
4

d1yovb1
5

c3gznB_
6

c3vh3A_
7

c2nvuB_
8

c3kydB_
9

c3vh1A_
10

c1y8qD_
11

c1y8qA_
12

c3cmmA_
13

c3gucB_
14

d1yova1
15

c1e5lA_
16

d1pjqa1
17

c2axqA_
18

d1vi2a1
19

c2nloA_
20

c3ic5A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1jw9b_



100.0 100 Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Molybdenum cofactor biosynthesis protein MoeB
2c1zfnA_



100.0 45 PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif
3c3h9gA_



100.0 25 PDB header:transferase/antibiotic
Chain: A: PDB Molecule:mccb protein;
PDBTitle: crystal structure of e. coli mccb + mcca-n7isoasn
4d1yovb1



100.0 25 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 26 PDB header:metal binding protein/protein transport
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of atg7ctd-atg8 complex
7c2nvuB_



100.0 26 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
8c3kydB_



100.0 32 PDB header:ligase
Chain: B: PDB Molecule:sumo-activating enzyme subunit 2;
PDBTitle: human sumo e1~sumo1-amp tetrahedral intermediate mimic
9c3vh1A_



100.0 27 PDB header:metal binding protein
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of saccharomyces cerevisiae atg7 (1-595)
10c1y8qD_



100.0 32 PDB header:ligase
Chain: D: PDB Molecule:ubiquitin-like 2 activating enzyme e1b;
PDBTitle: sumo e1 activating enzyme sae1-sae2-mg-atp complex
11c1y8qA_



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



98.1 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
17c2axqA_



98.1 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae
18d1vi2a1



98.0 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
19c2nloA_



97.9 33 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of the quinate dehydrogenase from corynebacterium2 glutamicum
20c3ic5A_



97.9 23 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
21c1vi2B_



not modelled 97.8 23 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate 5-dehydrogenase 2;
PDBTitle: crystal structure of shikimate-5-dehydrogenase with nad
22c1gpjA_



not modelled 97.8 26 PDB header:reductase
Chain: A: PDB Molecule:glutamyl-trna reductase;
PDBTitle: glutamyl-trna reductase from methanopyrus kandleri
23c3tozA_



not modelled 97.7 21 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.
24d1pzga1



not modelled 97.7 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
25c2z2vA_



not modelled 97.7 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1688;
PDBTitle: crystal structure of l-lysine dehydrogenase from2 hyperthermophilic archaeon pyrococcus horikoshii
26c3pgjB_



not modelled 97.6 22 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
27c2hjrK_



not modelled 97.6 16 PDB header:oxidoreductase
Chain: K: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of cryptosporidium parvum malate2 dehydrogenase
28d1gpja2



not modelled 97.6 28 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
29c1pjtB_



not modelled 97.6 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
30c2eggA_



not modelled 97.5 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5-dehydrogenase;
PDBTitle: crystal structure of shikimate 5-dehydrogenase (aroe) from2 geobacillus kaustophilus
31d9ldta1



not modelled 97.5 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
32d1np3a2



not modelled 97.5 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
33c2g1uA_



not modelled 97.5 19 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
34c3o8qB_



not modelled 97.4 22 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
35c3donA_



not modelled 97.4 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from staphylococcus2 epidermidis
36c1u4sA_



not modelled 97.4 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: plasmodium falciparum lactate dehydrogenase complexed with 2,6-2 naphthalenedisulphonic acid
37d1e5qa1



not modelled 97.4 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
38c3u62A_



not modelled 97.4 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from thermotoga maritima
39d1i0za1



not modelled 97.4 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
40c1pzfD_



not modelled 97.4 17 PDB header:oxidoreductase
Chain: D: PDB Molecule:lactate dehydrogenase;
PDBTitle: t.gondii ldh1 ternary complex with apad+ and oxalate
41c1bg6A_



not modelled 97.4 20 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
42c2fnzA_



not modelled 97.3 18 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)
43d1lssa_



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
44d1uxja1



not modelled 97.3 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
45c3d1lB_



not modelled 97.3 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nadp oxidoreductase bf3122;
PDBTitle: crystal structure of putative nadp oxidoreductase bf3122 from2 bacteroides fragilis
46c3k96B_



not modelled 97.3 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
47d1pjca1



not modelled 97.3 23 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
48c3dfzB_



not modelled 97.3 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:precorrin-2 dehydrogenase;
PDBTitle: sirc, precorrin-2 dehydrogenase
49c3pwzA_



not modelled 97.2 32 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase 3;
PDBTitle: crystal structure of an ael1 enzyme from pseudomonas putida
50c2ew2B_



not modelled 97.2 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
51c3eywA_



not modelled 97.2 23 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
52d1nvta1



not modelled 97.2 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
53c1pgqA_



not modelled 97.2 10 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
54c1zcjA_



not modelled 97.2 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:peroxisomal bifunctional enzyme;
PDBTitle: crystal structure of 3-hydroxyacyl-coa dehydrogenase
55d1kyqa1



not modelled 97.2 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
56d2pgda2



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
57c3k6jA_



not modelled 97.1 14 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
58c1np3B_



not modelled 97.1 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
59c1m67A_



not modelled 97.1 9 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
60c2x58B_



not modelled 97.1 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:peroxisomal bifunctional enzyme;
PDBTitle: the crystal structure of mfe1 liganded with coa
61c1ur5C_



not modelled 97.1 25 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
62d1t2da1



not modelled 97.1 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
63d1gtea4



not modelled 97.1 8 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:N-terminal domain of adrenodoxin reductase-like
64d5ldha1



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
65c3cumA_



not modelled 97.1 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of a possible 3-hydroxyisobutyrate dehydrogenase2 from pseudomonas aeruginosa pao1
66c1z82A_



not modelled 97.1 17 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
67d1ldna1



not modelled 97.1 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
68c1pgjA_



not modelled 97.0 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase;
PDBTitle: x-ray structure of 6-phosphogluconate dehydrogenase from the protozoan2 parasite t. brucei
69d1i10a1



not modelled 97.0 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
70c8ldhA_



not modelled 97.0 16 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
71c1hyhA_



not modelled 97.0 25 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
72c2ph5A_



not modelled 97.0 14 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
73c1gthD_



not modelled 97.0 8 PDB header:oxidoreductase
Chain: D: PDB Molecule:dihydropyrimidine dehydrogenase;
PDBTitle: dihydropyrimidine dehydrogenase (dpd) from pig, ternary2 complex with nadph and 5-iodouracil
74c1ldbA_



not modelled 97.0 21 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
75d2ldxa1



not modelled 96.9 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
76c2p4qA_



not modelled 96.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating 1;
PDBTitle: crystal structure analysis of gnd1 in saccharomyces cerevisiae
77d1hyha1



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
78c1wpqB_



not modelled 96.9 12 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
79c3tl2A_



not modelled 96.9 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of bacillus anthracis str. ames malate dehydrogenase2 in closed conformation.
80c3pqeD_



not modelled 96.9 19 PDB header:oxidoreductase
Chain: D: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: crystal structure of l-lactate dehydrogenase from bacillus subtilis2 with h171c mutation
81c2hk8B_



not modelled 96.9 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from aquifex2 aeolicus at 2.35 angstrom resolution
82d1n1ea2



not modelled 96.9 9 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
83c3fwnB_



not modelled 96.9 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating;
PDBTitle: dimeric 6-phosphogluconate dehydrogenase complexed with 6-2 phosphogluconate and 2'-monophosphoadenosine-5'-diphosphate
84c1nvtA_



not modelled 96.9 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5'-dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase (aroe or2 mj1084) in complex with nadp+
85c3djeA_



not modelled 96.9 43 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
86d2hmva1



not modelled 96.9 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
87d1ldma1



not modelled 96.9 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
88d1bg6a2



not modelled 96.8 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
89c3llvA_



not modelled 96.8 12 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
90c3mogA_



not modelled 96.8 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 3-hydroxybutyryl-coa dehydrogenase;
PDBTitle: crystal structure of 3-hydroxybutyryl-coa dehydrogenase from2 escherichia coli k12 substr. mg1655
91c3dhyC_



not modelled 96.8 19 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
92c2iz1C_



not modelled 96.8 11 PDB header:oxidoreductase
Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating;
PDBTitle: 6pdh complexed with pex inhibitor synchrotron data
93c1ojuA_



not modelled 96.8 16 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.
94d1obba1



not modelled 96.8 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
95c2dfdD_



not modelled 96.8 28 PDB header:oxidoreductase
Chain: D: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of human malate dehydrogenase type 2
96d2jfga1



not modelled 96.8 20 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
97c2v65A_



not modelled 96.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase a chain;
PDBTitle: apo ldh from the psychrophile c. gunnari
98c3fi9B_



not modelled 96.8 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of malate dehydrogenase from porphyromonas2 gingivalis
99c2ldxA_



not modelled 96.8 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
100c1m75B_



not modelled 96.8 26 PDB header:oxidoreductase
Chain: B: PDB Molecule:3-hydroxyacyl-coa dehydrogenase;
PDBTitle: crystal structure of the n208s mutant of l-3-hydroxyacyl-2 coa dehydrogenase in complex with nad and acetoacetyl-coa
101d1llda1



not modelled 96.8 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
102d1pgja2



not modelled 96.8 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
103c2wtbA_



not modelled 96.8 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:fatty acid multifunctional protein (atmfp2);
PDBTitle: arabidopsis thaliana multifuctional protein, mfp2
104c3gvpB_



not modelled 96.8 20 PDB header:hydrolase
Chain: B: PDB Molecule:adenosylhomocysteinase 3;
PDBTitle: human sahh-like domain of human adenosylhomocysteinase 3
105d1v8ba1



not modelled 96.8 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
106c2e37B_



not modelled 96.8 26 PDB header:oxidoreductase
Chain: B: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: structure of tt0471 protein from thermus thermophilus
107c1mldA_



not modelled 96.7 25 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
108c2d0iC_



not modelled 96.7 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure ph0520 protein from pyrococcus horikoshii ot3
109c3d0oA_



not modelled 96.7 28 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase 1;
PDBTitle: crystal structure of lactate dehydrogenase from2 staphylococcus aureus
110c1pj6A_



not modelled 96.7 30 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
111c1gv1D_



not modelled 96.7 26 PDB header:oxidoreductase
Chain: D: PDB Molecule:malate dehydrogenase;
PDBTitle: structural basis for thermophilic protein stability:2 structures of thermophilic and mesophilic malate3 dehydrogenases
112c2d4aC_



not modelled 96.7 21 PDB header:oxidoreductase
Chain: C: PDB Molecule:malate dehydrogenase;
PDBTitle: structure of the malate dehydrogenase from aeropyrum pernix
113c1txgA_



not modelled 96.7 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad(p)+];
PDBTitle: structure of glycerol-3-phosphate dehydrogenase from archaeoglobus2 fulgidus
114d1s6ya1



not modelled 96.7 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
115c1kyqC_



not modelled 96.7 18 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.
116d1u8xx1



not modelled 96.7 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
117c3n7uD_



not modelled 96.7 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
118d1txga2



not modelled 96.7 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
119c3hg7A_



not modelled 96.7 20 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
120c3hwrA_



not modelled 96.7 21 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

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