Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP26616
DateThu Jan 5 11:43:01 GMT 2012
Unique Job IDefb528c863f98b07

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1o0sB_
Top template information
PDB header:oxidoreductase
Chain: B: PDB Molecule:nad-dependent malic enzyme;
PDBTitle: crystal structure of ascaris suum malic enzyme complexed with nadh
Confidence and coverage
Confidence:100.0% Coverage: 97%
550 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  MEPKTKKQRSLYIPYAGPVLLEFPLLNKGSAFSMEERRNFNLLGLLPEVVETIEEQAERA
Secondary structure 




































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Disorder  ????????



















































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   .........70.........80.........90.........100.........110.........120
Sequence  WIQYQGFKTEIDKHIYLRNIQDTNETLFYRLVNNHLDEMMPVIYTPTVGAACERFSEIYR
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Disorder 




????


















































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   .........130.........140.........150.........160.........170.........180
Sequence  RSRGVFISYQNRHNMDDILQNVPNHNIKVIVVTDGERILGLGDQGIGGMGIPIGKLSLYT
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   .........190.........200.........210.........220.........230.........240
Sequence  ACGGISPAYTLPVVLDVGTNNQQLLNDPLYMGWRNPRITDDEYYEFVDEFIQAVKQRWPD
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??
?


















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   .........250.........260.........270.........280.........290.........300
Sequence  VLLQFEDFAQKNAMPLLNRYRNEICSFNDDIQGTAAVTVGTLIAASRAAGGQLSEKKIVF
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???








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   .........310.........320.........330.........340.........350.........360
Sequence  LGAGSAGCGIAEMIISQTQREGLSEEAARQKVFMVDRFGLLTDKMPNLLPFQTKLVQKRE
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Disorder 



















?????
















?



?









?
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   .........370.........380.........390.........400.........410.........420
Sequence  NLSDWDTDSDVLSLLDVVRNVKPDILIGVSGQTGLFTEEIIREMHKHCPRPIVMPLSNPT
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Disorder 
??????????



















???

























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   .........430.........440.........450.........460.........470.........480
Sequence  SRVEATPQDIIAWTEGNALVATGSPFNPVVWKDKIYPIAQCNNAFIFPGIGLGVIASGAS
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   .........490.........500.........510.........520.........530.........540
Sequence  RITDEMLMSASETLAQYSPLVLNGEGMVLPELKDIQKVSRAIAFAVGKMAQQQGVAVKTS
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Disorder 
















??????






























???
?
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   .........550.........560.....
Sequence  AEALQQAIDDNFWQAEYRDYRRTSI
Secondary structure 













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Disorder 




















????
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Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 1o0s chain B

3D model

Region: 6 - 564
Aligned: 550
Modelled: 559
Confidence: 100.0%
Identity: 40%
PDB header:oxidoreductase
Chain: B: PDB Molecule:nad-dependent malic enzyme;
PDBTitle: crystal structure of ascaris suum malic enzyme complexed with nadh

Phyre2

PDB 1gz3 chain B

3D model

Region: 12 - 564
Aligned: 546
Modelled: 553
Confidence: 100.0%
Identity: 41%
PDB header:oxidoreductase
Chain: B: PDB Molecule:nad-dependent malic enzyme;
PDBTitle: molecular mechanism for the regulation of human mitochondrial2 nad(p)+-dependent malic enzyme by atp and fumarate

Phyre2

PDB 1qr6 chain A

3D model

Region: 15 - 564
Aligned: 543
Modelled: 550
Confidence: 100.0%
Identity: 40%
PDB header:oxidoreductase
Chain: A: PDB Molecule:malic enzyme 2;
PDBTitle: human mitochondrial nad(p)-dependent malic enzyme

Phyre2

PDB 2aw5 chain A

3D model

Region: 17 - 558
Aligned: 527
Modelled: 542
Confidence: 100.0%
Identity: 43%
PDB header:oxidoreductase
Chain: A: PDB Molecule:nadp-dependent malic enzyme;
PDBTitle: crystal structure of a human malic enzyme

Phyre2

PDB 3nv9 chain A

3D model

Region: 45 - 554
Aligned: 442
Modelled: 499
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: A: PDB Molecule:malic enzyme;
PDBTitle: crystal structure of entamoeba histolytica malic enzyme

Phyre2

PDB 1ww8 chain A

3D model

Region: 98 - 562
Aligned: 386
Modelled: 419
Confidence: 100.0%
Identity: 30%
PDB header:oxidoreductase
Chain: A: PDB Molecule:malate oxidoreductase;
PDBTitle: crystal structure of malic enzyme from pyrococcus2 horikoshii ot3

Phyre2

PDB 1vl6 chain C

3D model

Region: 88 - 530
Aligned: 356
Modelled: 403
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: C: PDB Molecule:malate oxidoreductase;
PDBTitle: crystal structure of nad-dependent malic enzyme (tm0542) from2 thermotoga maritima at 2.61 a resolution

Phyre2

PDB 2a9f chain B

3D model

Region: 97 - 526
Aligned: 344
Modelled: 385
Confidence: 100.0%
Identity: 30%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative malic enzyme ((s)-malate:nad+
PDBTitle: crystal structure of a putative malic enzyme ((s)-2 malate:nad+ oxidoreductase (decarboxylating))

Phyre2

PDB 1o0s chain A domain 2

3D model

Region: 7 - 270
Aligned: 264
Modelled: 264
Confidence: 100.0%
Identity: 45%
Fold: Aminoacid dehydrogenase-like, N-terminal domain
Superfamily: Aminoacid dehydrogenase-like, N-terminal domain
Family: Malic enzyme N-domain

Phyre2

PDB 1pj3 chain A domain 2

3D model

Region: 13 - 270
Aligned: 258
Modelled: 258
Confidence: 100.0%
Identity: 46%
Fold: Aminoacid dehydrogenase-like, N-terminal domain
Superfamily: Aminoacid dehydrogenase-like, N-terminal domain
Family: Malic enzyme N-domain

Phyre2

PDB 1gq2 chain A domain 2

3D model

Region: 15 - 270
Aligned: 256
Modelled: 256
Confidence: 100.0%
Identity: 48%
Fold: Aminoacid dehydrogenase-like, N-terminal domain
Superfamily: Aminoacid dehydrogenase-like, N-terminal domain
Family: Malic enzyme N-domain

Phyre2

PDB 1o0s chain A domain 1

3D model

Region: 271 - 564
Aligned: 285
Modelled: 294
Confidence: 100.0%
Identity: 35%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 1pj3 chain A domain 1

3D model

Region: 271 - 564
Aligned: 287
Modelled: 294
Confidence: 100.0%
Identity: 34%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 1gq2 chain A domain 1

3D model

Region: 271 - 564
Aligned: 285
Modelled: 294
Confidence: 100.0%
Identity: 36%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 1vl6 chain A domain 1

3D model

Region: 270 - 530
Aligned: 220
Modelled: 251
Confidence: 100.0%
Identity: 31%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2

PDB 1vl6 chain A domain 2

3D model

Region: 86 - 269
Aligned: 137
Modelled: 146
Confidence: 100.0%
Identity: 24%
Fold: Aminoacid dehydrogenase-like, N-terminal domain
Superfamily: Aminoacid dehydrogenase-like, N-terminal domain
Family: Malic enzyme N-domain

Phyre2

PDB 1euz chain A domain 1

3D model

Region: 272 - 421
Aligned: 135
Modelled: 150
Confidence: 98.3%
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 1li4 chain A domain 1

3D model

Region: 269 - 432
Aligned: 124
Modelled: 145
Confidence: 98.0%
Identity: 20%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2

PDB 3n58 chain D

3D model

Region: 215 - 525
Aligned: 260
Modelled: 292
Confidence: 97.7%
Identity: 19%
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

Phyre2

PDB 1v9l chain A domain 1

3D model

Region: 272 - 421
Aligned: 136
Modelled: 140
Confidence: 97.6%
Identity: 14%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Aminoacid dehydrogenase-like, C-terminal domain

Phyre2
1

c1o0sB_
2

c1gz3B_
3

c1qr6A_
4

c2aw5A_
5

c3nv9A_
6

c1ww8A_
7

c1vl6C_
8

c2a9fB_
9

d1o0sa2
10

d1pj3a2
11

d1gq2a2
12

d1o0sa1
13

d1pj3a1
14

d1gq2a1
15

d1vl6a1
16

d1vl6a2
17

d1euza1
18

d1li4a1
19

c3n58D_
20

d1v9la1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1o0sB_



100.0 40 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad-dependent malic enzyme;
PDBTitle: crystal structure of ascaris suum malic enzyme complexed with nadh
2c1gz3B_



100.0 41 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad-dependent malic enzyme;
PDBTitle: molecular mechanism for the regulation of human mitochondrial2 nad(p)+-dependent malic enzyme by atp and fumarate
3c1qr6A_



100.0 40 PDB header:oxidoreductase
Chain: A: PDB Molecule:malic enzyme 2;
PDBTitle: human mitochondrial nad(p)-dependent malic enzyme
4c2aw5A_



100.0 43 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadp-dependent malic enzyme;
PDBTitle: crystal structure of a human malic enzyme
5c3nv9A_



100.0 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:malic enzyme;
PDBTitle: crystal structure of entamoeba histolytica malic enzyme
6c1ww8A_



100.0 30 PDB header:oxidoreductase
Chain: A: PDB Molecule:malate oxidoreductase;
PDBTitle: crystal structure of malic enzyme from pyrococcus2 horikoshii ot3
7c1vl6C_



100.0 29 PDB header:oxidoreductase
Chain: C: PDB Molecule:malate oxidoreductase;
PDBTitle: crystal structure of nad-dependent malic enzyme (tm0542) from2 thermotoga maritima at 2.61 a resolution
8c2a9fB_



100.0 30 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative malic enzyme ((s)-malate:nad+
PDBTitle: crystal structure of a putative malic enzyme ((s)-2 malate:nad+ oxidoreductase (decarboxylating))
9d1o0sa2



100.0 45 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Malic enzyme N-domain
10d1pj3a2



100.0 46 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Malic enzyme N-domain
11d1gq2a2



100.0 48 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Malic enzyme N-domain
12d1o0sa1



100.0 35 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
13d1pj3a1



100.0 34 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
14d1gq2a1



100.0 36 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
15d1vl6a1



100.0 31 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
16d1vl6a2



100.0 24 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Malic enzyme N-domain
17d1euza1



98.3 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
18d1li4a1



98.0 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
19c3n58D_



97.7 19 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
20d1v9la1



97.6 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
21d1v8ba1



not modelled 97.4 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
22c3aogA_



not modelled 97.3 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of glutamate dehydrogenase (gdhb) from thermus2 thermophilus (glu bound form)
23c3dhyC_



not modelled 97.3 21 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
24d1uxja1



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
25c3gvpB_



not modelled 97.2 16 PDB header:hydrolase
Chain: B: PDB Molecule:adenosylhomocysteinase 3;
PDBTitle: human sahh-like domain of human adenosylhomocysteinase 3
26c2rirA_



not modelled 97.1 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
27c2bmaA_



not modelled 97.1 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase (nadp+);
PDBTitle: the crystal structure of plasmodium falciparum glutamate2 dehydrogenase, a putative target for novel antimalarial3 drugs
28c3d4oA_



not modelled 97.1 21 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
29c1d4fD_



not modelled 97.0 15 PDB header:hydrolase
Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase;
PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
30d1t2da1



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
31c3aoeC_



not modelled 96.9 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of hetero-hexameric glutamate dehydrogenase from2 thermus thermophilus (leu bound form)
32d1pzga1



not modelled 96.8 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
33d1gpja2



not modelled 96.7 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
34d1l7da1



not modelled 96.7 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
35c1v9lA_



not modelled 96.6 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: l-glutamate dehydrogenase from pyrobaculum islandicum2 complexed with nad
36d1u8xx1



not modelled 96.6 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
37c1pzfD_



not modelled 96.6 19 PDB header:oxidoreductase
Chain: D: PDB Molecule:lactate dehydrogenase;
PDBTitle: t.gondii ldh1 ternary complex with apad+ and oxalate
38c3d64A_



not modelled 96.6 17 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei
39d1bvua1



not modelled 96.5 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
40c1gpjA_



not modelled 96.5 21 PDB header:reductase
Chain: A: PDB Molecule:glutamyl-trna reductase;
PDBTitle: glutamyl-trna reductase from methanopyrus kandleri
41d1vi2a1



not modelled 96.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
42c1bvuF_



not modelled 96.4 19 PDB header:oxidoreductase
Chain: F: PDB Molecule:protein (glutamate dehydrogenase);
PDBTitle: glutamate dehydrogenase from thermococcus litoralis
43c1obbB_



not modelled 96.4 24 PDB header:hydrolase
Chain: B: PDB Molecule:alpha-glucosidase;
PDBTitle: alpha-glucosidase a, agla, from thermotoga maritima in2 complex with maltose and nad+
44c1nr1A_



not modelled 96.3 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase 1;
PDBTitle: crystal structure of the r463a mutant of human glutamate2 dehydrogenase
45c1pjcA_



not modelled 96.2 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad
46d1s6ya1



not modelled 96.2 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
47c3tozA_



not modelled 96.1 18 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.
48d1llda1



not modelled 96.0 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
49c1hrdA_



not modelled 96.0 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: glutamate dehydrogenase
50c2fnzA_



not modelled 96.0 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)
51c3fefB_



not modelled 96.0 28 PDB header:hydrolase
Chain: B: PDB Molecule:putative glucosidase lpld;
PDBTitle: crystal structure of putative glucosidase lpld from2 bacillus subtilis
52c2eezG_



not modelled 96.0 17 PDB header:oxidoreductase
Chain: G: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase from themus thermophilus
53d1a4ia1



not modelled 95.8 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
54d1i10a1



not modelled 95.8 23 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
55c3p2yA_



not modelled 95.7 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
56c1u8xX_



not modelled 95.7 17 PDB header:hydrolase
Chain: X: PDB Molecule:maltose-6'-phosphate glucosidase;
PDBTitle: crystal structure of glva from bacillus subtilis, a metal-requiring,2 nad-dependent 6-phospho-alpha-glucosidase
57d9ldta1



not modelled 95.6 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
58d1obba1



not modelled 95.6 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
59d1vjta1



not modelled 95.6 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
60c2ep9A_



not modelled 95.6 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-gulonate 3-dehydrogenase;
PDBTitle: crystal structure of the rabbit l-gulonate 3-dehydrogenase2 (nadh form)
61d1b0aa1



not modelled 95.6 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
62d1ldna1



not modelled 95.5 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
63c1v8bA_



not modelled 95.5 17 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
64c3l07B_



not modelled 95.4 22 PDB header:oxidoreductase,hydrolase
Chain: B: PDB Molecule:bifunctional protein fold;
PDBTitle: methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate2 cyclohydrolase, putative bifunctional protein fold from francisella3 tularensis.
65d1gtma1



not modelled 95.4 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
66d1ojua1



not modelled 95.4 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
67c1a4iB_



not modelled 95.4 22 PDB header:oxidoreductase
Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase /
PDBTitle: human tetrahydrofolate dehydrogenase / cyclohydrolase
68d1guza1



not modelled 95.3 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
69c1ur5C_



not modelled 95.3 19 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
70c2hjrK_



not modelled 95.3 21 PDB header:oxidoreductase
Chain: K: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of cryptosporidium parvum malate2 dehydrogenase
71d1pjca1



not modelled 95.3 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
72d1ez4a1



not modelled 95.3 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
73c3oneA_



not modelled 95.2 20 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
74d1b26a1



not modelled 95.2 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
75c1u4sA_



not modelled 95.2 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: plasmodium falciparum lactate dehydrogenase complexed with 2,6-2 naphthalenedisulphonic acid
76c1wwkA_



not modelled 95.1 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3
77d1a5za1



not modelled 95.1 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
78c2tmgD_



not modelled 95.1 13 PDB header:oxidoreductase
Chain: D: PDB Molecule:protein (glutamate dehydrogenase);
PDBTitle: thermotoga maritima glutamate dehydrogenase mutant s128r,2 t158e, n117r, s160e
79c2v6bB_



not modelled 95.1 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:l-lactate dehydrogenase;
PDBTitle: crystal structure of lactate dehydrogenase from deinococcus2 radiodurans (apo form)
80d1gv0a1



not modelled 95.0 23 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
81d1y6ja1



not modelled 95.0 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
82c2j6iC_



not modelled 95.0 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:formate dehydrogenase;
PDBTitle: candida boidinii formate dehydrogenase (fdh) c-terminal2 mutant
83c3evtA_



not modelled 95.0 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from2 lactobacillus plantarum
84c4a5oB_



not modelled 95.0 26 PDB header:oxidoreductase
Chain: B: PDB Molecule:bifunctional protein fold;
PDBTitle: crystal structure of pseudomonas aeruginosa n5, n10-2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase (fold)
85c1s6yA_



not modelled 94.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:6-phospho-beta-glucosidase;
PDBTitle: 2.3a crystal structure of phospho-beta-glucosidase
86c3d0oA_



not modelled 94.7 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-lactate dehydrogenase 1;
PDBTitle: crystal structure of lactate dehydrogenase from2 staphylococcus aureus
87c3p2oA_



not modelled 94.7 24 PDB header:oxidoreductase, hydrolase
Chain: A: PDB Molecule:bifunctional protein fold;
PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni
88c3p2oB_



not modelled 94.5 23 PDB header:oxidoreductase, hydrolase
Chain: B: PDB Molecule:bifunctional protein fold;
PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni
89c4a26B_



not modelled 94.5 27 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative c-1-tetrahydrofolate synthase, cytoplasmic;
PDBTitle: the crystal structure of leishmania major n5,n10-2 methylenetetrahydrofolate dehydrogenase/cyclohydrolase
90c2cukC_



not modelled 94.5 27 PDB header:oxidoreductase
Chain: C: PDB Molecule:glycerate dehydrogenase/glyoxylate reductase;
PDBTitle: crystal structure of tt0316 protein from thermus thermophilus hb8
91c1ez4B_



not modelled 94.5 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:lactate dehydrogenase;
PDBTitle: crystal structure of non-allosteric l-lactate dehydrogenase2 from lactobacillus pentosus at 2.3 angstrom resolution
92c3gviB_



not modelled 94.5 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of lactate/malate dehydrogenase from2 brucella melitensis in complex with adp
93c3nepX_



not modelled 94.4 24 PDB header:oxidoreductase
Chain: X: PDB Molecule:malate dehydrogenase;
PDBTitle: 1.55a resolution structure of malate dehydrogenase from salinibacter2 ruber
94c3k8zD_



not modelled 94.4 20 PDB header:oxidoreductase
Chain: D: PDB Molecule:nad-specific glutamate dehydrogenase;
PDBTitle: crystal structure of gudb1 a decryptified secondary glutamate2 dehydrogenase from b. subtilis
95d1hwxa1



not modelled 94.4 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
96d1llca1



not modelled 94.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
97d1i0za1



not modelled 94.3 26 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
98d1hyha1



not modelled 94.2 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
99c3donA_



not modelled 94.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from staphylococcus2 epidermidis
100d1bgva1



not modelled 94.0 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
101d1jw9b_



not modelled 94.0 16 Fold:Activating enzymes of the ubiquitin-like proteins
Superfamily:Activating enzymes of the ubiquitin-like proteins
Family:Molybdenum cofactor biosynthesis protein MoeB
102c3u62A_



not modelled 93.9 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from thermotoga maritima
103c2gcgB_



not modelled 93.9 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase
104c1zfnA_



not modelled 93.9 16 PDB header:transferase
Chain: A: PDB Molecule:adenylyltransferase thif;
PDBTitle: structural analysis of escherichia coli thif
105c2hk8B_



not modelled 93.9 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from aquifex2 aeolicus at 2.35 angstrom resolution
106d5ldha1



not modelled 93.8 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
107c2d4aC_



not modelled 93.6 19 PDB header:oxidoreductase
Chain: C: PDB Molecule:malate dehydrogenase;
PDBTitle: structure of the malate dehydrogenase from aeropyrum pernix
108c1up6F_



not modelled 93.6 25 PDB header:hydrolase
Chain: F: PDB Molecule:6-phospho-beta-glucosidase;
PDBTitle: structure of the 6-phospho-beta glucosidase from thermotoga2 maritima at 2.55 angstrom resolution in the tetragonal form3 with manganese, nad+ and glucose-6-phosphate
109c1vjtA_



not modelled 93.6 24 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-glucosidase;
PDBTitle: crystal structure of alpha-glucosidase (tm0752) from thermotoga2 maritima at 2.50 a resolution
110c1ojuA_



not modelled 93.6 17 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.
111c1b0aA_



not modelled 93.4 22 PDB header:oxidoreductase,hydrolase
Chain: A: PDB Molecule:protein (fold bifunctional protein);
PDBTitle: 5,10, methylene-tetrahydropholate2 dehydrogenase/cyclohydrolase from e coli.
112c3h9gA_



not modelled 93.4 14 PDB header:transferase/antibiotic
Chain: A: PDB Molecule:mccb protein;
PDBTitle: crystal structure of e. coli mccb + mcca-n7isoasn
113c3gucB_



not modelled 93.3 24 PDB header:transferase
Chain: B: PDB Molecule:ubiquitin-like modifier-activating enzyme 5;
PDBTitle: human ubiquitin-activating enzyme 5 in complex with amppnp
114c8ldhA_



not modelled 93.3 24 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
115c1luaA_



not modelled 93.2 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:methylene tetrahydromethanopterin dehydrogenase;
PDBTitle: structure of methylene-tetrahydromethanopterin dehydrogenase from2 methylobacterium extorquens am1 complexed with nadp
116c1ldbA_



not modelled 93.2 17 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
117d1ldma1



not modelled 93.1 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
118d1luaa1



not modelled 93.1 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
119d1mlda1



not modelled 93.0 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
120c3vh1A_



not modelled 93.0 20 PDB header:metal binding protein
Chain: A: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7;
PDBTitle: crystal structure of saccharomyces cerevisiae atg7 (1-595)

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