Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A6U3
DateThu Jan 5 11:03:55 GMT 2012
Unique Job IDaeb60b7769836e85

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3cp8C_
Top template information
PDB header:oxidoreductase
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: crystal structure of gida from chlorobium tepidum
Confidence and coverage
Confidence:100.0% Coverage: 96%
605 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  MFYPDPFDVIIIGGGHAGTEAAMAAARMGQQTLLLTHNIDTLGQMSCNPAIGGIGKGHLV
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?????




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   .........70.........80.........90.........100.........110.........120
Sequence  KEVDALGGLMAKAIDQAGIQFRILNASKGPAVRATRAQADRVLYRQAVRTALENQPNLMI
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?

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   .........130.........140.........150.........160.........170.........180
Sequence  FQQAVEDLIVENDRVVGAVTQMGLKFRAKAVVLTVGTFLDGKIHIGLDNYSGGRAGDPPS
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??
????????
??

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   .........190.........200.........210.........220.........230.........240
Sequence  IPLSRRLRELPLRVGRLKTGTPPRIDARTIDFSVLAQQHGDNPMPVFSFMGNASQHPQQV
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   .........250.........260.........270.........280.........290.........300
Sequence  PCYITHTNEKTHDVIRSNLDRSPMYAGVIEGVGPRYCPSIEDKVMRFADRNQHQIFLEPE
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   .........310.........320.........330.........340.........350.........360
Sequence  GLTSNEIYPNGISTSLPFDVQMQIVRSMQGMENAKIVRPGYAIEYDFFDPRDLKPTLESK
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   .........370.........380.........390.........400.........410.........420
Sequence  FIQGLFFAGQINGTTGYEEAAAQGLLAGLNAARLSADKEGWAPARSQAYLGVLVDDLCTL
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?????

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   .........430.........440.........450.........460.........470.........480
Sequence  GTKEPYRMFTSRAEYRLMLREDNADLRLTEIGRELGLVDDERWARFNEKLENIERERQRL
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   .........490.........500.........510.........520.........530.........540
Sequence  KSTWVTPSAEAAAEVNAHLTAPLSREASGEDLLRRPEMTYEKLTTLTPFAPALTDEQAAE
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?????????


































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   .........550.........560.........570.........580.........590.........600
Sequence  QVEIQVKYEGYIARQQDEIEKQLRNENTLLPATLDYRQVSGLSNEVIAKLNDHKPASIGQ
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   .........610.........620.........
Sequence  ASRISGVTPAAISILLVWLKKQGMLRRSA
Secondary structure 






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

Domain analysis 

Hover over an aligned region to see model and summary info

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

RankAligned region

PDB 3cp8 chain C

3D model

Region: 5 - 619
Aligned: 605
Modelled: 615
Confidence: 100.0%
Identity: 48%
PDB header:oxidoreductase
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: crystal structure of gida from chlorobium tepidum

Phyre2

PDB 2zxi chain C

3D model

Region: 2 - 621
Aligned: 594
Modelled: 606
Confidence: 100.0%
Identity: 52%
PDB header:fad-binding protein
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: structure of aquifex aeolicus gida in the form ii crystal

Phyre2

PDB 3g05 chain B

3D model

Region: 2 - 550
Aligned: 521
Modelled: 534
Confidence: 100.0%
Identity: 100%
PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of n-terminal domain (2-550) of e.coli mnmg

Phyre2

PDB 3ces chain B

3D model

Region: 1 - 550
Aligned: 518
Modelled: 531
Confidence: 100.0%
Identity: 100%
PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of e.coli mnmg (gida), a highly-conserved trna2 modifying enzyme

Phyre2

PDB 3g5r chain A

3D model

Region: 8 - 481
Aligned: 396
Modelled: 409
Confidence: 100.0%
Identity: 28%
PDB header:transferase
Chain: A: PDB Molecule:methylenetetrahydrofolate--trna-(uracil-5-)-
PDBTitle: crystal structure of thermus thermophilus trmfo in complex with2 tetrahydrofolate

Phyre2

PDB 2cul chain A domain 1

3D model

Region: 6 - 262
Aligned: 224
Modelled: 235
Confidence: 100.0%
Identity: 25%
Fold: FAD/NAD(P)-binding domain
Superfamily: FAD/NAD(P)-binding domain
Family: GidA-like

Phyre2

PDB 2i0z chain A

3D model

Region: 6 - 396
Aligned: 375
Modelled: 386
Confidence: 100.0%
Identity: 19%
PDB header:oxidoreductase
Chain: A: PDB Molecule:nad(fad)-utilizing dehydrogenases;
PDBTitle: crystal structure of a fad binding protein from bacillus2 cereus, a putative nad(fad)-utilizing dehydrogenases

Phyre2

PDB 1jrx chain A

3D model

Region: 3 - 395
Aligned: 365
Modelled: 371
Confidence: 100.0%
Identity: 18%
PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c;
PDBTitle: crystal structure of arg402ala mutant flavocytochrome c32 from shewanella frigidimarina

Phyre2

PDB 3p4r chain M

3D model

Region: 6 - 480
Aligned: 416
Modelled: 437
Confidence: 99.9%
Identity: 20%
PDB header:oxidoreductase
Chain: M: PDB Molecule:fumarate reductase flavoprotein subunit;
PDBTitle: crystal structure of menaquinol:fumarate oxidoreductase in complex2 with glutarate

Phyre2

PDB 1kf6 chain A

3D model

Region: 6 - 400
Aligned: 349
Modelled: 360
Confidence: 99.9%
Identity: 19%
PDB header:oxidoreductase
Chain: A: PDB Molecule:fumarate reductase flavoprotein;
PDBTitle: e. coli quinol-fumarate reductase with bound inhibitor hqno

Phyre2

PDB 2fja chain C

3D model

Region: 4 - 496
Aligned: 467
Modelled: 485
Confidence: 99.9%
Identity: 16%
PDB header:oxidoreductase
Chain: C: PDB Molecule:adenylylsulfate reductase, subunit a;
PDBTitle: adenosine 5'-phosphosulfate reductase in complex with2 substrate

Phyre2

PDB 2gqf chain A domain 1

3D model

Region: 3 - 394
Aligned: 230
Modelled: 235
Confidence: 99.9%
Identity: 23%
Fold: FAD/NAD(P)-binding domain
Superfamily: FAD/NAD(P)-binding domain
Family: HI0933 N-terminal domain-like

Phyre2

PDB 1d4c chain B

3D model

Region: 3 - 397
Aligned: 382
Modelled: 395
Confidence: 99.9%
Identity: 16%
PDB header:oxidoreductase
Chain: B: PDB Molecule:flavocytochrome c fumarate reductase;
PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1

Phyre2

PDB 1yq4 chain A

3D model

Region: 3 - 408
Aligned: 370
Modelled: 375
Confidence: 99.9%
Identity: 17%
PDB header:oxidoreductase
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: avian respiratory complex ii with 3-nitropropionate and ubiquinone

Phyre2

PDB 1qo8 chain A

3D model

Region: 3 - 396
Aligned: 389
Modelled: 394
Confidence: 99.9%
Identity: 18%
PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase

Phyre2

PDB 2gqf chain A

3D model

Region: 3 - 393
Aligned: 365
Modelled: 384
Confidence: 99.9%
Identity: 15%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hi0933;
PDBTitle: crystal structure of flavoprotein hi0933 from haemophilus influenzae2 rd

Phyre2

PDB 3nlc chain A

3D model

Region: 8 - 397
Aligned: 385
Modelled: 385
Confidence: 99.9%
Identity: 17%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein vp0956;
PDBTitle: crystal structure of the vp0956 protein from vibrio parahaemolyticus.2 northeast structural genomics consortium target vpr147

Phyre2

PDB 2acz chain A

3D model

Region: 5 - 401
Aligned: 360
Modelled: 361
Confidence: 99.9%
Identity: 16%
PDB header:oxidoreductase/electron transport
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: complex ii (succinate dehydrogenase) from e. coli with atpenin a52 inhibitor co-crystallized at the ubiquinone binding site

Phyre2

PDB 3v76 chain A

3D model

Region: 8 - 390
Aligned: 357
Modelled: 375
Confidence: 99.9%
Identity: 16%
PDB header:flavoprotein
Chain: A: PDB Molecule:flavoprotein;
PDBTitle: the crystal structure of a flavoprotein from sinorhizobium meliloti

Phyre2

PDB 2bs3 chain A

3D model

Region: 5 - 400
Aligned: 350
Modelled: 361
Confidence: 99.9%
Identity: 17%
PDB header:oxidoreductase
Chain: A: PDB Molecule:quinol-fumarate reductase flavoprotein subunit a;
PDBTitle: glu c180 -> gln variant quinol:fumarate reductase from2 wolinella succinogenes

Phyre2
1

c3cp8C_
2

c2zxiC_
3

c3g05B_
4

c3cesB_
5

c3g5rA_
6

d2cula1
7

c2i0zA_
8

c1jrxA_
9

c3p4rM_
10

c1kf6A_
11

c2fjaC_
12

d2gqfa1
13

c1d4cB_
14

c1yq4A_
15

c1qo8A_
16

c2gqfA_
17

c3nlcA_
18

c2aczA_
19

c3v76A_
20

c2bs3A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3cp8C_



100.0 48 PDB header:oxidoreductase
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: crystal structure of gida from chlorobium tepidum
2c2zxiC_



100.0 52 PDB header:fad-binding protein
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: structure of aquifex aeolicus gida in the form ii crystal
3c3g05B_



100.0 100 PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of n-terminal domain (2-550) of e.coli mnmg
4c3cesB_



100.0 100 PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of e.coli mnmg (gida), a highly-conserved trna2 modifying enzyme
5c3g5rA_



100.0 28 PDB header:transferase
Chain: A: PDB Molecule:methylenetetrahydrofolate--trna-(uracil-5-)-
PDBTitle: crystal structure of thermus thermophilus trmfo in complex with2 tetrahydrofolate
6d2cula1



100.0 25 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GidA-like
7c2i0zA_



100.0 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad(fad)-utilizing dehydrogenases;
PDBTitle: crystal structure of a fad binding protein from bacillus2 cereus, a putative nad(fad)-utilizing dehydrogenases
8c1jrxA_



100.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c;
PDBTitle: crystal structure of arg402ala mutant flavocytochrome c32 from shewanella frigidimarina
9c3p4rM_



99.9 20 PDB header:oxidoreductase
Chain: M: PDB Molecule:fumarate reductase flavoprotein subunit;
PDBTitle: crystal structure of menaquinol:fumarate oxidoreductase in complex2 with glutarate
10c1kf6A_



99.9 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:fumarate reductase flavoprotein;
PDBTitle: e. coli quinol-fumarate reductase with bound inhibitor hqno
11c2fjaC_



99.9 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:adenylylsulfate reductase, subunit a;
PDBTitle: adenosine 5'-phosphosulfate reductase in complex with2 substrate
12d2gqfa1



99.9 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:HI0933 N-terminal domain-like
13c1d4cB_



99.9 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:flavocytochrome c fumarate reductase;
PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1
14c1yq4A_



99.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: avian respiratory complex ii with 3-nitropropionate and ubiquinone
15c1qo8A_



99.9 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase
16c2gqfA_



99.9 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hi0933;
PDBTitle: crystal structure of flavoprotein hi0933 from haemophilus influenzae2 rd
17c3nlcA_



99.9 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein vp0956;
PDBTitle: crystal structure of the vp0956 protein from vibrio parahaemolyticus.2 northeast structural genomics consortium target vpr147
18c2aczA_



99.9 16 PDB header:oxidoreductase/electron transport
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: complex ii (succinate dehydrogenase) from e. coli with atpenin a52 inhibitor co-crystallized at the ubiquinone binding site
19c3v76A_



99.9 16 PDB header:flavoprotein
Chain: A: PDB Molecule:flavoprotein;
PDBTitle: the crystal structure of a flavoprotein from sinorhizobium meliloti
20c2bs3A_



99.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:quinol-fumarate reductase flavoprotein subunit a;
PDBTitle: glu c180 -> gln variant quinol:fumarate reductase from2 wolinella succinogenes
21c3gyxA_



not modelled 99.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:adenylylsulfate reductase;
PDBTitle: crystal structure of adenylylsulfate reductase from2 desulfovibrio gigas
22c1chuA_



not modelled 99.9 20 PDB header:flavoenzyme
Chain: A: PDB Molecule:protein (l-aspartate oxidase);
PDBTitle: structure of l-aspartate oxidase: implications for the2 succinate dehydrogenase/ fumarate reducatse family
23c2e5vA_



not modelled 99.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-aspartate oxidase;
PDBTitle: crystal structure of l-aspartate oxidase from2 hyperthermophilic archaeon sulfolobus tokodaii
24d1qo8a2



not modelled 99.8 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
25d1y0pa2



not modelled 99.8 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
26d1d4ca2



not modelled 99.8 26 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
27c1x31A_



not modelled 99.8 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:sarcosine oxidase alpha subunit;
PDBTitle: crystal structure of heterotetrameric sarcosine oxidase from2 corynebacterium sp. u-96
28c1hyuA_



not modelled 99.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:alkyl hydroperoxide reductase subunit f;
PDBTitle: crystal structure of intact ahpf
29d1chua2



not modelled 99.8 28 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
30d2i0za1



not modelled 99.7 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:HI0933 N-terminal domain-like
31d2bs2a2



not modelled 99.7 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
32c3ab1B_



not modelled 99.7 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin--nadp reductase;
PDBTitle: crystal structure of ferredoxin nadp+ oxidoreductase
33c3r9uA_



not modelled 99.7 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: thioredoxin-disulfide reductase from campylobacter jejuni.
34c3fbsB_



not modelled 99.7 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:oxidoreductase;
PDBTitle: the crystal structure of the oxidoreductase from agrobacterium2 tumefaciens
35c2v6oA_



not modelled 99.7 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin glutathione reductase;
PDBTitle: structure of schistosoma mansoni thioredoxin-glutathione2 reductase (smtgr)
36d1jnra2



not modelled 99.7 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
37c2zbwA_



not modelled 99.7 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of thioredoxin reductase-like protein from thermus2 thermophilus hb8
38c3f8rD_



not modelled 99.6 17 PDB header:oxidoreductase
Chain: D: PDB Molecule:thioredoxin reductase (trxb-3);
PDBTitle: crystal structure of sulfolobus solfataricus thioredoxin2 reductase b3 in complex with two nadp molecules
39c2w0hA_



not modelled 99.6 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:trypanothione reductase;
PDBTitle: x ray structure of leishmania infantum trypanothione2 reductase in complex with antimony and nadph
40d1lpfa1



not modelled 99.6 18 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
41c1ndaD_



not modelled 99.6 23 PDB header:oxidoreductase
Chain: D: PDB Molecule:trypanothione oxidoreductase;
PDBTitle: the structure of trypanosoma cruzi trypanothione reductase2 in the oxidized and nadph reduced state
42c2gmhA_



not modelled 99.6 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:electron transfer flavoprotein-ubiquinone
PDBTitle: structure of porcine electron transfer flavoprotein-2 ubiquinone oxidoreductase in complexed with ubiquinone
43c3o0hA_



not modelled 99.6 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:glutathione reductase;
PDBTitle: crystal structure of glutathione reductase from bartonella henselae
44c1fl2A_



not modelled 99.6 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:alkyl hydroperoxide reductase subunit f;
PDBTitle: catalytic core component of the alkylhydroperoxide reductase ahpf from2 e.coli
45d1kf6a2



not modelled 99.6 19 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
46c2q0lA_



not modelled 99.6 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: helicobacter pylori thioredoxin reductase reduced by sodium dithionite2 in complex with nadp+
47c1ojtA_



not modelled 99.6 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:surface protein;
PDBTitle: structure of dihydrolipoamide dehydrogenase
48d3grsa1



not modelled 99.6 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
49c2c3dB_



not modelled 99.6 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-oxopropyl-com reductase;
PDBTitle: 2.15 angstrom crystal structure of 2-ketopropyl coenzyme m2 oxidoreductase carboxylase with a coenzyme m disulfide3 bound at the active site
50c1tytA_



not modelled 99.6 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:trypanothione reductase, oxidized form;
PDBTitle: crystal and molecular structure of crithidia fasciculata2 trypanothione reductase at 2.6 angstroms resolution
51c2a87A_



not modelled 99.6 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of m. tuberculosis thioredoxin reductase
52c1f6mF_



not modelled 99.6 13 PDB header:oxidoreductase
Chain: F: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of a complex between thioredoxin2 reductase, thioredoxin, and the nadp+ analog, aadp+
53c1zmcG_



not modelled 99.6 13 PDB header:oxidoreductase
Chain: G: PDB Molecule:dihydrolipoyl dehydrogenase;
PDBTitle: crystal structure of human dihydrolipoamide dehydrogenase2 complexed to nad+
54c3lzxB_



not modelled 99.6 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin--nadp reductase 2;
PDBTitle: crystal structure of ferredoxin-nadp+ oxidoreductase from bacillus2 subtilis (form ii)
55c3da1A_



not modelled 99.6 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: x-ray structure of the glycerol-3-phosphate dehydrogenase2 from bacillus halodurans complexed with fad. northeast3 structural genomics consortium target bhr167.
56c3jskN_



not modelled 99.6 23 PDB header:biosynthetic protein
Chain: N: PDB Molecule:cypbp37 protein;
PDBTitle: thiazole synthase from neurospora crassa
57c2eq8E_



not modelled 99.6 35 PDB header:oxidoreductase
Chain: E: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide
PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdp
58c1vdcA_



not modelled 99.5 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dependent thioredoxin reductase;
PDBTitle: structure of nadph dependent thioredoxin reductase
59d3lada1



not modelled 99.5 18 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
60c3dgzA_



not modelled 99.5 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase 2;
PDBTitle: crystal structure of mouse mitochondrial thioredoxin reductase, c-2 terminal 3-residue truncation
61d1rp0a1



not modelled 99.5 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Thi4-like
62c1y56A_



not modelled 99.5 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1363;
PDBTitle: crystal structure of l-proline dehydrogenase from p.horikoshii
63d1w4xa1



not modelled 99.5 19 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
64c2rghA_



not modelled 99.5 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-glycerophosphate oxidase;
PDBTitle: structure of alpha-glycerophosphate oxidase from2 streptococcus sp.: a template for the mitochondrial alpha-3 glycerophosphate dehydrogenase
65c1dxlC_



not modelled 99.5 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: dihydrolipoamide dehydrogenase of glycine decarboxylase2 from pisum sativum
66c3ic9D_



not modelled 99.5 19 PDB header:oxidoreductase
Chain: D: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: the structure of dihydrolipoamide dehydrogenase from colwellia2 psychrerythraea 34h.
67d1lvla1



not modelled 99.5 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
68c2q7vA_



not modelled 99.5 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of deinococcus radiodurans thioredoxin2 reductase
69c3ka7A_



not modelled 99.5 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase;
PDBTitle: crystal structure of an oxidoreductase from methanosarcina2 mazei. northeast structural genomics consortium target id3 mar208
70c1v59B_



not modelled 99.5 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: crystal structure of yeast lipoamide dehydrogenase2 complexed with nad+
71c2hqmB_



not modelled 99.5 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:glutathione reductase;
PDBTitle: crystal structure of glutathione reductase glr1 from the yeast2 saccharomyces cerevisiae
72d1ryia1



not modelled 99.5 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
73d1neka2



not modelled 99.5 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
74c1ltxR_



not modelled 99.5 20 PDB header:transferase/protein binding
Chain: R: PDB Molecule:rab escort protein 1;
PDBTitle: structure of rab escort protein-1 in complex with rab2 geranylgeranyl transferase and isoprenoid
75d1dxla1



not modelled 99.5 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
76c3d8xB_



not modelled 99.5 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:thioredoxin reductase 1;
PDBTitle: crystal structure of saccharomyces cerevisiae nadph dependent2 thioredoxin reductase 1
77c2rgoA_



not modelled 99.5 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-glycerophosphate oxidase;
PDBTitle: structure of alpha-glycerophosphate oxidase from2 streptococcus sp.: a template for the mitochondrial alpha-3 glycerophosphate dehydrogenase
78c3ctyA_



not modelled 99.5 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of t. acidophilum thioredoxin reductase
79d1h6va1



not modelled 99.5 18 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
80d1feca1



not modelled 99.5 16 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
81c1lpfB_



not modelled 99.5 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: three-dimensional structure of lipoamide dehydrogenase from2 pseudomonas fluorescens at 2.8 angstroms resolution.3 analysis of redox and thermostability properties
82c1s3bB_



not modelled 99.5 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:amine oxidase [flavin-containing] b;
PDBTitle: crystal structure of maob in complex with n-methyl-n-2 propargyl-1(r)-aminoindan
83d1pj5a2



not modelled 99.5 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
84c3atrA_



not modelled 99.5 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:conserved archaeal protein;
PDBTitle: geranylgeranyl reductase (ggr) from sulfolobus acidocaldarius co-2 crystallized with its ligand
85c3dmeB_



not modelled 99.5 17 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:conserved exported protein;
PDBTitle: crystal structure of conserved exported protein from2 bordetella pertussis. northeast structural genomics target3 ber141
86c1pj6A_



not modelled 99.5 23 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
87c2a8xA_



not modelled 99.5 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydrolipoyl dehydrogenase;
PDBTitle: crystal structure of lipoamide dehydrogenase from2 mycobacterium tuberculosis
88d2gf3a1



not modelled 99.5 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
89c2r4jA_



not modelled 99.5 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:aerobic glycerol-3-phosphate dehydrogenase;
PDBTitle: crystal structure of escherichia coli semet substituted2 glycerol-3-phosphate dehydrogenase in complex with dhap
90c2ardA_



not modelled 99.5 17 PDB header:biosynthetic protein
Chain: A: PDB Molecule:tryptophan halogenase prna;
PDBTitle: the structure of tryptophan 7-halogenase (prna) suggests a mechanism2 for regioselective chlorination
91c3k30B_



not modelled 99.5 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:histamine dehydrogenase;
PDBTitle: histamine dehydrogenase from nocardiodes simplex
92c3djeA_



not modelled 99.5 19 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
93c1w4xA_



not modelled 99.4 19 PDB header:oxygenase
Chain: A: PDB Molecule:phenylacetone monooxygenase;
PDBTitle: phenylacetone monooxygenase, a baeyer-villiger2 monooxygenase
94d1vg0a1



not modelled 99.4 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GDI-like N domain
95c3e1tA_



not modelled 99.4 23 PDB header:flavoprotein
Chain: A: PDB Molecule:halogenase;
PDBTitle: structure and action of the myxobacterial chondrochloren2 halogenase cndh, a new variant of fad-dependent halogenases
96d1d5ta1



not modelled 99.4 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GDI-like N domain
97d2gmha1



not modelled 99.4 13 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
98c2cfyB_



not modelled 99.4 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:thioredoxin reductase 1;
PDBTitle: crystal structure of human thioredoxin reductase 1
99d1ojta1



not modelled 99.4 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
100c1bwcA_



not modelled 99.4 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (glutathione reductase);
PDBTitle: structure of human glutathione reductase complexed with ajoene2 inhibitor and subversive substrate
101c2pyxA_



not modelled 99.4 15 PDB header:biosynthetic protein
Chain: A: PDB Molecule:tryptophan halogenase;
PDBTitle: crystal structure of tryptophan halogenase (yp_750003.1) from2 shewanella frigidimarina ncimb 400 at 1.50 a resolution
102c1fcdB_



not modelled 99.4 17 PDB header:electron transport(flavocytochrome)
Chain: B: PDB Molecule:flavocytochrome c sulfide dehydrogenase (flavin-
PDBTitle: the structure of flavocytochrome c sulfide dehydrogenase2 from a purple phototrophic bacterium chromatium vinosum at3 2.5 angstroms resolution
103c3gwdA_



not modelled 99.4 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:cyclohexanone monooxygenase;
PDBTitle: closed crystal structure of cyclohexanone monooxygenase
104d1v59a1



not modelled 99.4 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
105c3i3lA_



not modelled 99.4 16 PDB header:hydrolase
Chain: A: PDB Molecule:alkylhalidase cmls;
PDBTitle: crystal structure of cmls, a flavin-dependent halogenase
106d2bcgg1



not modelled 99.4 19 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GDI-like N domain
107c2e4gB_



not modelled 99.4 20 PDB header:biosynthetic protein, flavoprotein
Chain: B: PDB Molecule:tryptophan halogenase;
PDBTitle: rebh with bound l-trp
108c1lvlA_



not modelled 99.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: the refined structure of pseudomonas putida lipoamide dehydrogenase2 complexed with nad+ at 2.45 angstroms resolution
109c1geuA_



not modelled 99.4 20 PDB header:oxidoreductase(flavoenzyme)
Chain: A: PDB Molecule:glutathione reductase;
PDBTitle: anatomy of an engineered nad-binding site
110c1gthD_



not modelled 99.4 14 PDB header:oxidoreductase
Chain: D: PDB Molecule:dihydropyrimidine dehydrogenase;
PDBTitle: dihydropyrimidine dehydrogenase (dpd) from pig, ternary2 complex with nadph and 5-iodouracil
111c3l8kB_



not modelled 99.4 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:dihydrolipoyl dehydrogenase;
PDBTitle: crystal structure of a dihydrolipoyl dehydrogenase from2 sulfolobus solfataricus
112d1aoga1



not modelled 99.4 13 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
113c1zx9A_



not modelled 99.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:mercuric reductase;
PDBTitle: crystal structure of tn501 mera
114c2qaeA_



not modelled 99.4 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydrolipoyl dehydrogenase;
PDBTitle: crystal structure analysis of trypanosoma cruzi lipoamide2 dehydrogenase
115d1trba1



not modelled 99.4 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
116c2olnA_



not modelled 99.4 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:nikd protein;
PDBTitle: nikd, an unusual amino acid oxidase essential for2 nikkomycin biosynthesis: closed form at 1.15 a resolution
117c2eq7B_



not modelled 99.4 23 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-oxoglutarate dehydrogenase e3 component;
PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdo
118c1zkqA_



not modelled 99.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase 2, mitochondrial;
PDBTitle: crystal structure of mouse thioredoxin reductase type 2
119c1ebdB_



not modelled 99.4 13 PDB header:complex (oxidoreductase/transferase)
Chain: B: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: dihydrolipoamide dehydrogenase complexed with the binding2 domain of the dihydrolipoamide acetylase
120c3ps9A_



not modelled 99.4 18 PDB header:transferase
Chain: A: PDB Molecule:trna 5-methylaminomethyl-2-thiouridine biosynthesis
PDBTitle: crystal structure of mnmc from e. coli

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