Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39830
DateThu Jan 5 12:00:54 GMT 2012
Unique Job ID5c57c77774bb0da5

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1zcdA_
Top template information
PDB header:membrane protein
Chain: A: PDB Molecule:na(+)/h(+) antiporter 1;
PDBTitle: crystal structure of the na+/h+ antiporter nhaa
Confidence and coverage
Confidence:100.0% Coverage: 62%
347 residues ( 62% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
505 residues ( 91%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MHHATPLITTIVGGLVLAFILGMLANKLRISPLVGYLLAGVLAGPFTPGFVADTKLAPEL
Secondary structure 














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Disorder  ????






















?































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




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??


































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


























?????????
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   .........190.........200.........210.........220.........230.........240
Sequence  GFATLAVDMGITIGKVIAFIAIMMLVGRRLVPWIMARSAATGSRELFTLSVLALALGVAF
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   .........250.........260.........270.........280.........290.........300
Sequence  GAVELFDVSFALGAFFAGMVLNESELSHRAAHDTLPLRDAFAVLFFVSVGMLFDPLILIQ
Secondary structure 






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?








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   .........310.........320.........330.........340.........350.........360
Sequence  QPLAVLATLAIILFGKSLAAFFLVRLFGHSQRTALTIAASLAQIGEFAFILAGLGMALNL
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??














??
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   .........370.........380.........390.........400.........410.........420
Sequence  LPQAGQNLVLAGAILSIMLNPVLFALLEKYLAKTETLEEQTLEEAIEEEKQIPVDICNHA
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???????????????????????



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   .........430.........440.........450.........460.........470.........480
Sequence  LLVGYGRVGSLLGEKLLASDIPLVVIETSRTRVDELRERGVRAVLGNAANEEIMQLAHLE
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   .........490.........500.........510.........520.........530.........540
Sequence  CAKWLILTIPNGYEAGEIVASARAKNPDIEIIARAHYDDEVAYITERGANQVVMGEREIA
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   .........550........
Sequence  RTMLELLETPPAGEVVTG
Secondary structure 







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Disorder 





????????????
Disorder confidence 

















 

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

Domain analysis 

Hover over an aligned region to see model and summary info

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

RankAligned region

PDB 1zcd chain A

3D model

Region: 12 - 390
Aligned: 347
Modelled: 349
Confidence: 100.0%
Identity: 16%
PDB header:membrane protein
Chain: A: PDB Molecule:na(+)/h(+) antiporter 1;
PDBTitle: crystal structure of the na+/h+ antiporter nhaa

Phyre2

PDB 3fwz chain A

3D model

Region: 414 - 550
Aligned: 137
Modelled: 137
Confidence: 99.9%
Identity: 98%
PDB header:membrane protein
Chain: A: PDB Molecule:inner membrane protein ybal;
PDBTitle: crystal structure of trka-n domain of inner membrane protein ybal from2 escherichia coli

Phyre2

PDB 3eyw chain A

3D model

Region: 419 - 547
Aligned: 129
Modelled: 129
Confidence: 99.9%
Identity: 24%
PDB header:transport protein
Chain: A: PDB Molecule:c-terminal domain of glutathione-regulated potassium-efflux
PDBTitle: crystal structure of the c-terminal domain of e. coli kefc in complex2 with keff

Phyre2

PDB 1id1 chain A

3D model

Region: 415 - 554
Aligned: 140
Modelled: 140
Confidence: 99.9%
Identity: 11%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 1lss chain A

3D model

Region: 419 - 549
Aligned: 130
Modelled: 131
Confidence: 99.9%
Identity: 19%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 3c85 chain A

3D model

Region: 411 - 557
Aligned: 147
Modelled: 147
Confidence: 99.9%
Identity: 18%
PDB header:transport protein
Chain: A: PDB Molecule:putative glutathione-regulated potassium-efflux system
PDBTitle: crystal structure of trka domain of putative glutathione-regulated2 potassium-efflux kefb from vibrio parahaemolyticus

Phyre2

PDB 3llv chain A

3D model

Region: 417 - 548
Aligned: 131
Modelled: 132
Confidence: 99.9%
Identity: 18%
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

Phyre2

PDB 2fy8 chain A domain 1

3D model

Region: 418 - 548
Aligned: 129
Modelled: 131
Confidence: 99.9%
Identity: 18%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 2hmv chain A domain 1

3D model

Region: 418 - 551
Aligned: 134
Modelled: 134
Confidence: 99.9%
Identity: 15%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 2fy8 chain A

3D model

Region: 417 - 556
Aligned: 138
Modelled: 140
Confidence: 99.9%
Identity: 17%
PDB header:transport protein
Chain: A: PDB Molecule:calcium-gated potassium channel mthk;
PDBTitle: crystal structure of mthk rck domain in its ligand-free gating-ring2 form

Phyre2

PDB 2g1u chain A

3D model

Region: 414 - 547
Aligned: 133
Modelled: 133
Confidence: 99.9%
Identity: 20%
PDB header:transport protein
Chain: A: PDB Molecule:hypothetical protein tm1088a;
PDBTitle: crystal structure of a putative transport protein (tm1088a) from2 thermotoga maritima at 1.50 a resolution

Phyre2

PDB 3l4b chain G

3D model

Region: 419 - 557
Aligned: 139
Modelled: 139
Confidence: 99.9%
Identity: 13%
PDB header:transport protein
Chain: G: PDB Molecule:trka k+ channel protien tm1088b;
PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima

Phyre2

PDB 1lnq chain C

3D model

Region: 409 - 556
Aligned: 146
Modelled: 148
Confidence: 99.8%
Identity: 16%
PDB header:metal transport
Chain: C: PDB Molecule:potassium channel related protein;
PDBTitle: crystal structure of mthk at 3.3 a

Phyre2

PDB 3u6n chain C

3D model

Region: 418 - 557
Aligned: 140
Modelled: 140
Confidence: 99.6%
Identity: 14%
PDB header:transport protein
Chain: C: PDB Molecule:high-conductance ca2+-activated k+ channel protein;
PDBTitle: open structure of the bk channel gating ring

Phyre2

PDB 3mt5 chain A

3D model

Region: 418 - 557
Aligned: 140
Modelled: 140
Confidence: 99.6%
Identity: 13%
PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:potassium large conductance calcium-activated channel,
PDBTitle: crystal structure of the human bk gating apparatus

Phyre2

PDB 3naf chain A

3D model

Region: 413 - 557
Aligned: 145
Modelled: 145
Confidence: 99.4%
Identity: 12%
PDB header:ion transport
Chain: A: PDB Molecule:calcium-activated potassium channel subunit alpha-1;
PDBTitle: structure of the intracellular gating ring from the human high-2 conductance ca2+ gated k+ channel (bk channel)

Phyre2

PDB 1e5q chain A domain 1

3D model

Region: 417 - 555
Aligned: 137
Modelled: 139
Confidence: 99.0%
Identity: 16%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain

Phyre2

PDB 1pjq chain A domain 1

3D model

Region: 417 - 519
Aligned: 94
Modelled: 103
Confidence: 98.6%
Identity: 17%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Siroheme synthase N-terminal domain-like

Phyre2

PDB 1e5l chain A

3D model

Region: 417 - 548
Aligned: 128
Modelled: 132
Confidence: 98.3%
Identity: 15%
PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea

Phyre2

PDB 3ic5 chain A

3D model

Region: 419 - 527
Aligned: 105
Modelled: 106
Confidence: 98.2%
Identity: 17%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.

Phyre2

PDB 1pjc chain A domain 1

3D model

Region: 387 - 490
Aligned: 103
Modelled: 103
Confidence: 98.1%
Identity: 14%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Formate/glycerate dehydrogenases, NAD-domain

Phyre2
1

c1zcdA_
2

c3fwzA_
3

c3eywA_
4

d1id1a_
5

d1lssa_
6

c3c85A_
7

c3llvA_
8

d2fy8a1
9

d2hmva1
10

c2fy8A_
11

c2g1uA_
12

c3l4bG_
13

c1lnqC_
14

c3u6nC_
15

c3mt5A_
16

c3nafA_
17

d1e5qa1
18

d1pjqa1
19

c1e5lA_
20

c3ic5A_
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d1pjca1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1zcdA_



100.0 16 PDB header:membrane protein
Chain: A: PDB Molecule:na(+)/h(+) antiporter 1;
PDBTitle: crystal structure of the na+/h+ antiporter nhaa
2c3fwzA_



99.9 98 PDB header:membrane protein
Chain: A: PDB Molecule:inner membrane protein ybal;
PDBTitle: crystal structure of trka-n domain of inner membrane protein ybal from2 escherichia coli
3c3eywA_



99.9 24 PDB header:transport protein
Chain: A: PDB Molecule:c-terminal domain of glutathione-regulated potassium-efflux
PDBTitle: crystal structure of the c-terminal domain of e. coli kefc in complex2 with keff
4d1id1a_



99.9 11 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
5d1lssa_



99.9 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
6c3c85A_



99.9 18 PDB header:transport protein
Chain: A: PDB Molecule:putative glutathione-regulated potassium-efflux system
PDBTitle: crystal structure of trka domain of putative glutathione-regulated2 potassium-efflux kefb from vibrio parahaemolyticus
7c3llvA_



99.9 18 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
8d2fy8a1



99.9 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
9d2hmva1



99.9 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
10c2fy8A_



99.9 17 PDB header:transport protein
Chain: A: PDB Molecule:calcium-gated potassium channel mthk;
PDBTitle: crystal structure of mthk rck domain in its ligand-free gating-ring2 form
11c2g1uA_



99.9 20 PDB header:transport protein
Chain: A: PDB Molecule:hypothetical protein tm1088a;
PDBTitle: crystal structure of a putative transport protein (tm1088a) from2 thermotoga maritima at 1.50 a resolution
12c3l4bG_



99.9 13 PDB header:transport protein
Chain: G: PDB Molecule:trka k+ channel protien tm1088b;
PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima
13c1lnqC_



99.8 16 PDB header:metal transport
Chain: C: PDB Molecule:potassium channel related protein;
PDBTitle: crystal structure of mthk at 3.3 a
14c3u6nC_



99.6 14 PDB header:transport protein
Chain: C: PDB Molecule:high-conductance ca2+-activated k+ channel protein;
PDBTitle: open structure of the bk channel gating ring
15c3mt5A_



99.6 13 PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:potassium large conductance calcium-activated channel,
PDBTitle: crystal structure of the human bk gating apparatus
16c3nafA_



99.4 12 PDB header:ion transport
Chain: A: PDB Molecule:calcium-activated potassium channel subunit alpha-1;
PDBTitle: structure of the intracellular gating ring from the human high-2 conductance ca2+ gated k+ channel (bk channel)
17d1e5qa1



99.0 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
18d1pjqa1



98.6 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
19c1e5lA_



98.3 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea
20c3ic5A_



98.2 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
21c3ktdC_



not modelled 98.2 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of a putative prephenate dehydrogenase (cgl0226)2 from corynebacterium glutamicum atcc 13032 at 2.60 a resolution
22c2axqA_



not modelled 98.1 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae
23d2pgda2



not modelled 98.1 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
24d1pjca1



98.1 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
25c3dhyC_



not modelled 98.0 20 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
26c3cumA_



not modelled 98.0 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of a possible 3-hydroxyisobutyrate dehydrogenase2 from pseudomonas aeruginosa pao1
27c2qx7A_



not modelled 98.0 16 PDB header:plant protein
Chain: A: PDB Molecule:eugenol synthase 1;
PDBTitle: structure of eugenol synthase from ocimum basilicum
28c3fwnB_



not modelled 97.9 15 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
29d2f1ka2



not modelled 97.9 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
30c2f1kD_



not modelled 97.9 17 PDB header:oxidoreductase
Chain: D: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of synechocystis arogenate dehydrogenase
31c3d4oA_



not modelled 97.9 24 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
32c2iz1C_



not modelled 97.9 14 PDB header:oxidoreductase
Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating;
PDBTitle: 6pdh complexed with pex inhibitor synchrotron data
33d1xgka_



not modelled 97.9 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
34c3l6dB_



not modelled 97.9 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of putative oxidoreductase from pseudomonas putida2 kt2440
35c2vhyB_



not modelled 97.8 11 PDB header:oxidoreductase
Chain: B: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of apo l-alanine dehydrogenase from2 mycobacterium tuberculosis
36c2rirA_



not modelled 97.8 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
37c1pgjA_



not modelled 97.8 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase;
PDBTitle: x-ray structure of 6-phosphogluconate dehydrogenase from the protozoan2 parasite t. brucei
38c3n58D_



not modelled 97.8 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
39c1vpdA_



not modelled 97.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:tartronate semialdehyde reductase;
PDBTitle: x-ray crystal structure of tartronate semialdehyde reductase2 [salmonella typhimurium lt2]
40c2zcuA_



not modelled 97.7 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:uncharacterized oxidoreductase ytfg;
PDBTitle: crystal structure of a new type of nadph-dependent quinone2 oxidoreductase (qor2) from escherichia coli
41c3oneA_



not modelled 97.7 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
42c2g5cD_



not modelled 97.7 12 PDB header:oxidoreductase
Chain: D: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from aquifex aeolicus
43c1v8bA_



not modelled 97.7 15 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
44c1bg6A_



not modelled 97.7 16 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
45c3triB_



not modelled 97.7 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:pyrroline-5-carboxylate reductase;
PDBTitle: structure of a pyrroline-5-carboxylate reductase (proc) from coxiella2 burnetii
46c3qhaB_



not modelled 97.7 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase from mycobacterium2 avium 104
47c3ggpA_



not modelled 97.7 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from a. aeolicus in2 complex with hydroxyphenyl propionate and nad+
48c2p4qA_



not modelled 97.7 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating 1;
PDBTitle: crystal structure analysis of gnd1 in saccharomyces cerevisiae
49c3b1fA_



not modelled 97.7 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from streptococcus2 mutans
50c3ckyA_



not modelled 97.6 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-hydroxymethyl glutarate dehydrogenase;
PDBTitle: structural and kinetic properties of a beta-hydroxyacid dehydrogenase2 involved in nicotinate fermentation
51c3gvpB_



not modelled 97.6 17 PDB header:hydrolase
Chain: B: PDB Molecule:adenosylhomocysteinase 3;
PDBTitle: human sahh-like domain of human adenosylhomocysteinase 3
52c2we7A_



not modelled 97.6 7 PDB header:oxidoreductase
Chain: A: PDB Molecule:xanthine dehydrogenase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv0376c2 homologue from mycobacterium smegmatis
53c2z2vA_



not modelled 97.6 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1688;
PDBTitle: crystal structure of l-lysine dehydrogenase from2 hyperthermophilic archaeon pyrococcus horikoshii
54d1bg6a2



not modelled 97.6 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
55d1pgja2



not modelled 97.6 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
56c1pgqA_



not modelled 97.6 14 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
57c3d64A_



not modelled 97.6 22 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei
58c2eezG_



not modelled 97.6 15 PDB header:oxidoreductase
Chain: G: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase from themus thermophilus
59c2ag8A_



not modelled 97.6 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyrroline-5-carboxylate reductase;
PDBTitle: nadp complex of pyrroline-5-carboxylate reductase from neisseria2 meningitidis
60c3k96B_



not modelled 97.6 18 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
61c2vrcD_



not modelled 97.5 19 PDB header:oxidoreductase
Chain: D: PDB Molecule:triphenylmethane reductase;
PDBTitle: crystal structure of the citrobacter sp. triphenylmethane2 reductase complexed with nadp(h)
62c3g0oA_



not modelled 97.5 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of 3-hydroxyisobutyrate dehydrogenase2 (ygbj) from salmonella typhimurium
63d3cuma2



not modelled 97.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
64c1d4fD_



not modelled 97.5 17 PDB header:hydrolase
Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase;
PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
65c3orqA_



not modelled 97.5 11 PDB header:ligase,biosynthetic protein
Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp
66d1l7da1



not modelled 97.5 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
67c2o3jC_



not modelled 97.5 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:udp-glucose 6-dehydrogenase;
PDBTitle: structure of caenorhabditis elegans udp-glucose dehydrogenase
68c2pv7B_



not modelled 97.5 19 PDB header:isomerase, oxidoreductase
Chain: B: PDB Molecule:t-protein [includes: chorismate mutase (ec 5.4.99.5) (cm)
PDBTitle: crystal structure of chorismate mutase / prephenate dehydrogenase2 (tyra) (1574749) from haemophilus influenzae rd at 2.00 a resolution
69c3d1lB_



not modelled 97.5 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nadp oxidoreductase bf3122;
PDBTitle: crystal structure of putative nadp oxidoreductase bf3122 from2 bacteroides fragilis
70c2cvzD_



not modelled 97.5 15 PDB header:oxidoreductase
Chain: D: PDB Molecule:3-hydroxyisobutyrate dehydrogenase;
PDBTitle: structure of hydroxyisobutyrate dehydrogenase from thermus2 thermophilus hb8
71c2y0dB_



not modelled 97.5 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:udp-glucose dehydrogenase;
PDBTitle: bcec mutation y10k
72d1qyda_



not modelled 97.5 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
73c3gg2B_



not modelled 97.5 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:sugar dehydrogenase, udp-glucose/gdp-mannose
PDBTitle: crystal structure of udp-glucose 6-dehydrogenase from2 porphyromonas gingivalis bound to product udp-glucuronate
74c3c24A_



not modelled 97.5 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase (yp_511008.1) from2 jannaschia sp. ccs1 at 1.62 a resolution
75d1li4a1



not modelled 97.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
76c3plnA_



not modelled 97.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:udp-glucose 6-dehydrogenase;
PDBTitle: crystal structure of klebsiella pneumoniae udp-glucose 6-dehydrogenase2 complexed with udp-glucose
77c1pjcA_



not modelled 97.4 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad
78c2ew2B_



not modelled 97.4 13 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
79c1pjtB_



not modelled 97.4 20 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
80d1vpda2



not modelled 97.4 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
81d2cvza2



not modelled 97.4 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
82c1kjjA_



not modelled 97.4 10 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
83c2dwcB_



not modelled 97.4 14 PDB header:transferase
Chain: B: PDB Molecule:433aa long hypothetical phosphoribosylglycinamide formyl
PDBTitle: crystal structure of probable phosphoribosylglycinamide formyl2 transferase from pyrococcus horikoshii ot3 complexed with adp
84c3i5mA_



not modelled 97.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative leucoanthocyanidin reductase 1;
PDBTitle: structure of the apo form of leucoanthocyanidin reductase from vitis2 vinifera
85c1np3B_



not modelled 97.4 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
86d1uxja1



not modelled 97.4 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
87c3ojlA_



not modelled 97.4 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:cap5o;
PDBTitle: native structure of the udp-n-acetyl-mannosamine dehydrogenase cap5o2 from staphylococcus aureus
88d1kyqa1



not modelled 97.4 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
89c1m6vE_



not modelled 97.3 15 PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
90c2gf2B_



not modelled 97.3 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of human hydroxyisobutyrate dehydrogenase
91d1np3a2



not modelled 97.3 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
92d1qyca_



not modelled 97.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
93d2jfga1



not modelled 97.3 17 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
94c1i36A_



not modelled 97.3 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein mth1747;
PDBTitle: structure of conserved protein mth1747 of unknown function2 reveals structural similarity with 3-hydroxyacid3 dehydrogenases
95c3dfzB_



not modelled 97.3 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:precorrin-2 dehydrogenase;
PDBTitle: sirc, precorrin-2 dehydrogenase
96d1v8ba1



not modelled 97.3 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
97c2x4gA_



not modelled 97.3 11 PDB header:isomerase
Chain: A: PDB Molecule:nucleoside-diphosphate-sugar epimerase;
PDBTitle: crystal structure of pa4631, a nucleoside-diphosphate-sugar2 epimerase from pseudomonas aeruginosa
98c3pefA_



not modelled 97.3 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:6-phosphogluconate dehydrogenase, nad-binding;
PDBTitle: crystal structure of gamma-hydroxybutyrate dehydrogenase from2 geobacter metallireducens in complex with nadp+
99c2ahrB_



not modelled 97.3 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative pyrroline carboxylate reductase;
PDBTitle: crystal structures of 1-pyrroline-5-carboxylate reductase from human2 pathogen streptococcus pyogenes
100c1mv8A_



not modelled 97.3 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:gdp-mannose 6-dehydrogenase;
PDBTitle: 1.55 a crystal structure of a ternary complex of gdp-mannose2 dehydrogenase from psuedomonas aeruginosa
101c1bxgA_



not modelled 97.2 21 PDB header:amino acid dehydrogenase
Chain: A: PDB Molecule:phenylalanine dehydrogenase;
PDBTitle: phenylalanine dehydrogenase structure in ternary complex2 with nad+ and beta-phenylpropionate
102c3hwrA_



not modelled 97.2 12 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
103d2ahra2



not modelled 97.2 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
104c2c20D_



not modelled 97.2 18 PDB header:isomerase
Chain: D: PDB Molecule:udp-glucose 4-epimerase;
PDBTitle: crystal structure of udp-glucose 4-epimerase
105d1p3da1



not modelled 97.2 18 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
106d9ldta1



not modelled 97.2 11 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
107c3q2oB_



not modelled 97.2 10 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
108c3e48B_



not modelled 97.2 14 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative nucleoside-diphosphate-sugar epimerase;
PDBTitle: crystal structure of a nucleoside-diphosphate-sugar epimerase2 (sav0421) from staphylococcus aureus, northeast structural genomics3 consortium target zr319
109c1kyqC_



not modelled 97.2 15 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.
110c2gasA_



not modelled 97.2 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:isoflavone reductase;
PDBTitle: crystal structure of isoflavone reductase
111c3c1oA_



not modelled 97.2 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:eugenol synthase;
PDBTitle: the multiple phenylpropene synthases in both clarkia2 breweri and petunia hybrida represent two distinct lineages
112c1dliA_



not modelled 97.2 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:udp-glucose dehydrogenase;
PDBTitle: the first structure of udp-glucose dehydrogenase (udpgdh) reveals the2 catalytic residues necessary for the two-fold oxidation
113d1yqga2



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
114c3qvoA_



not modelled 97.2 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:nmra family protein;
PDBTitle: structure of a rossmann-fold nad(p)-binding family protein from2 shigella flexneri.
115c3dttA_



not modelled 97.1 8 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadp oxidoreductase;
PDBTitle: crystal structure of a putative f420 dependent nadp-reductase2 (arth_0613) from arthrobacter sp. fb24 at 1.70 a resolution
116d1dlja2



not modelled 97.1 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
117c2uyyD_



not modelled 97.1 17 PDB header:cytokine
Chain: D: PDB Molecule:n-pac protein;
PDBTitle: structure of the cytokine-like nuclear factor n-pac
118c2ep9A_



not modelled 97.1 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-gulonate 3-dehydrogenase;
PDBTitle: crystal structure of the rabbit l-gulonate 3-dehydrogenase2 (nadh form)
119c3dzbA_



not modelled 97.1 19 PDB header:biosynthetic protein
Chain: A: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from streptococcus2 thermophilus
120c2gcgB_



not modelled 97.1 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase

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