Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionQ46808
DateThu Jan 5 12:34:35 GMT 2012
Unique Job ID5ea91f1b9f173ca3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2we7A_
Top template information
PDB header:oxidoreductase
Chain: A: PDB Molecule:xanthine dehydrogenase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv0376c2 homologue from mycobacterium smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 46%
251 residues ( 46% 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.
351 residues ( 65%) 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  MNIFTEAAKLEEQNCPFAMAQIVDSRGSTPRHSAQMLVRADGSIVGTIGGGMVERKVIEE
Secondary structure 
















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Disorder  ??






















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   .........70.........80.........90.........100.........110.........120
Sequence  SLQALQERKPRLFHGRMARNGADAVGSDCGGAMSVFISVHGMRPRLVLIGAGHVNRAIAQ
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   .........130.........140.........150.........160.........170.........180
Sequence  SAALLGFDIAVADIYRESLNPELFPPSTTLLHAESFGAAVEALDIRPDNFVLIATNNQDR
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   .........190.........200.........210.........220.........230.........240
Sequence  EALDKLIEQPIAWLGLLASRRKVQLFLRQLREKGVAEEHIARLHAPVGYNIGAETPQEIA
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   .........250.........260.........270.........280.........290.........300
Sequence  ISVLAEILQVKNNAPGGLMMKPSHPSGHQLVVIRGAGDIASGVALRLYHAGFKVIMLEVE
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???????????????

???????????
















?
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   .........310.........320.........330.........340.........350.........360
Sequence  KPTVIRCTVAFAQAVFDGEMTVEGVTARLATSSAEAMKLTERGFIPVMVDPACSLLDELK
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   .........370.........380.........390.........400.........410.........420
Sequence  PLCVVDAILAKQNLGTRADMAPVTIALGPGFTAGKDCHAVIETNRGHWLGQVIYSGCAQE
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?
?









































??
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   .........430.........440.........450.........460.........470.........480
Sequence  NTGVPGNIMGHTTRRVIRAPAAGIMRSNVKLGDLVKEGDVIAWIGEHEIKAPLTGMVRGL
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Disorder  ????????
?


















??


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   .........490.........500.........510.........520.........530.........540
Sequence  LNDGLAVVGGFKIGDIDPRGETADFTSVSDKARAIGGGVLEALMMLMHQGVKATKEVLEV
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?











































?????????????
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   .
Sequence  A
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 

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

Domain analysis 

Hover over an aligned region to see model and summary info

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

RankAligned region

PDB 2we7 chain A

3D model

Region: 2 - 252
Aligned: 251
Modelled: 251
Confidence: 100.0%
Identity: 32%
PDB header:oxidoreductase
Chain: A: PDB Molecule:xanthine dehydrogenase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv0376c2 homologue from mycobacterium smegmatis

Phyre2

PDB 3on5 chain B

3D model

Region: 2 - 265
Aligned: 248
Modelled: 264
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: B: PDB Molecule:bh1974 protein;
PDBTitle: crystal structure of a xanthine dehydrogenase (bh1974) from bacillus2 halodurans at 2.80 a resolution

Phyre2

PDB 3llv chain A

3D model

Region: 103 - 249
Aligned: 126
Modelled: 126
Confidence: 98.4%
Identity: 16%
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 2g1u chain A

3D model

Region: 101 - 249
Aligned: 130
Modelled: 132
Confidence: 98.0%
Identity: 15%
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 2kcc chain A

3D model

Region: 436 - 498
Aligned: 63
Modelled: 62
Confidence: 97.8%
Identity: 22%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of biotinoyl domain from human acetyl-2 coa carboxylase 2

Phyre2

PDB 2dn8 chain A

3D model

Region: 436 - 498
Aligned: 63
Modelled: 63
Confidence: 97.7%
Identity: 22%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase

Phyre2

PDB 3fmc chain C

3D model

Region: 413 - 496
Aligned: 82
Modelled: 84
Confidence: 97.6%
Identity: 17%
PDB header:hydrolase
Chain: C: PDB Molecule:putative succinylglutamate desuccinylase / aspartoacylase;
PDBTitle: crystal structure of a putative succinylglutamate desuccinylase /2 aspartoacylase family protein (sama_0604) from shewanella amazonensis3 sb2b at 1.80 a resolution

Phyre2

PDB 3ic5 chain A

3D model

Region: 102 - 213
Aligned: 111
Modelled: 111
Confidence: 97.5%
Identity: 16%
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 1lss chain A

3D model

Region: 105 - 210
Aligned: 106
Modelled: 106
Confidence: 97.5%
Identity: 15%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 2qj8 chain B

3D model

Region: 432 - 496
Aligned: 64
Modelled: 65
Confidence: 97.5%
Identity: 23%
PDB header:hydrolase
Chain: B: PDB Molecule:mlr6093 protein;
PDBTitle: crystal structure of an aspartoacylase family protein (mlr6093) from2 mesorhizobium loti maff303099 at 2.00 a resolution

Phyre2

PDB 2b8g chain A

3D model

Region: 437 - 501
Aligned: 65
Modelled: 65
Confidence: 97.4%
Identity: 25%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:biotin/lipoyl attachment protein;
PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)

Phyre2

PDB 2hmv chain A domain 1

3D model

Region: 105 - 252
Aligned: 132
Modelled: 133
Confidence: 97.4%
Identity: 18%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: Potassium channel NAD-binding domain

Phyre2

PDB 2jfg chain A domain 1

3D model

Region: 105 - 195
Aligned: 86
Modelled: 91
Confidence: 97.4%
Identity: 14%
Fold: MurCD N-terminal domain
Superfamily: MurCD N-terminal domain
Family: MurCD N-terminal domain

Phyre2

PDB 3cdx chain B

3D model

Region: 415 - 496
Aligned: 81
Modelled: 82
Confidence: 97.3%
Identity: 17%
PDB header:hydrolase
Chain: B: PDB Molecule:succinylglutamatedesuccinylase/aspartoacylase;
PDBTitle: crystal structure of2 succinylglutamatedesuccinylase/aspartoacylase from3 rhodobacter sphaeroides

Phyre2

PDB 1bdo chain A

3D model

Region: 433 - 497
Aligned: 65
Modelled: 65
Confidence: 97.3%
Identity: 23%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2

PDB 3na6 chain A

3D model

Region: 425 - 496
Aligned: 71
Modelled: 72
Confidence: 97.3%
Identity: 20%
PDB header:hydrolase
Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase;
PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution

Phyre2

PDB 3fwz chain A

3D model

Region: 105 - 216
Aligned: 112
Modelled: 112
Confidence: 97.3%
Identity: 10%
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 3k5i chain B

3D model

Region: 100 - 216
Aligned: 110
Modelled: 117
Confidence: 97.3%
Identity: 15%
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosyl-aminoimidazole carboxylase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthase from2 aspergillus clavatus in complex with adp and 5-3 aminoimadazole ribonucleotide

Phyre2

PDB 2ejg chain D

3D model

Region: 436 - 496
Aligned: 61
Modelled: 61
Confidence: 97.3%
Identity: 34%
PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3

Phyre2

PDB 3eyw chain A

3D model

Region: 105 - 217
Aligned: 113
Modelled: 113
Confidence: 97.2%
Identity: 12%
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
1

c2we7A_
2

c3on5B_
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c3llvA_
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c2g1uA_
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c2kccA_
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c2dn8A_
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c3fmcC_
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c3ic5A_
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d1lssa_
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c2qj8B_
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c2b8gA_
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d2hmva1
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d2jfga1
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c3cdxB_
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d1bdoa_
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c3na6A_
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c3fwzA_
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c3k5iB_
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c2ejgD_
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c3eywA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2we7A_



100.0 32 PDB header:oxidoreductase
Chain: A: PDB Molecule:xanthine dehydrogenase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv0376c2 homologue from mycobacterium smegmatis
2c3on5B_



100.0 29 PDB header:oxidoreductase
Chain: B: PDB Molecule:bh1974 protein;
PDBTitle: crystal structure of a xanthine dehydrogenase (bh1974) from bacillus2 halodurans at 2.80 a resolution
3c3llvA_



98.4 16 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
4c2g1uA_



98.0 15 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
5c2kccA_



97.8 22 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of biotinoyl domain from human acetyl-2 coa carboxylase 2
6c2dn8A_



97.7 22 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase
7c3fmcC_



97.6 17 PDB header:hydrolase
Chain: C: PDB Molecule:putative succinylglutamate desuccinylase / aspartoacylase;
PDBTitle: crystal structure of a putative succinylglutamate desuccinylase /2 aspartoacylase family protein (sama_0604) from shewanella amazonensis3 sb2b at 1.80 a resolution
8c3ic5A_



97.5 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
9d1lssa_



97.5 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
10c2qj8B_



97.5 23 PDB header:hydrolase
Chain: B: PDB Molecule:mlr6093 protein;
PDBTitle: crystal structure of an aspartoacylase family protein (mlr6093) from2 mesorhizobium loti maff303099 at 2.00 a resolution
11c2b8gA_



97.4 25 PDB header:biosynthetic protein
Chain: A: PDB Molecule:biotin/lipoyl attachment protein;
PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)
12d2hmva1



97.4 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
13d2jfga1



97.4 14 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
14c3cdxB_



97.3 17 PDB header:hydrolase
Chain: B: PDB Molecule:succinylglutamatedesuccinylase/aspartoacylase;
PDBTitle: crystal structure of2 succinylglutamatedesuccinylase/aspartoacylase from3 rhodobacter sphaeroides
15d1bdoa_



97.3 23 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
16c3na6A_



97.3 20 PDB header:hydrolase
Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase;
PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution
17c3fwzA_



97.3 10 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
18c3k5iB_



97.3 15 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosyl-aminoimidazole carboxylase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthase from2 aspergillus clavatus in complex with adp and 5-3 aminoimadazole ribonucleotide
19c2ejgD_



97.3 34 PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3
20c3eywA_



97.2 12 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
21d1dcza_



not modelled 97.2 38 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
22d1o78a_



not modelled 97.2 39 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
23c3n6rK_



not modelled 97.2 23 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
24c3uvzB_



not modelled 97.1 18 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria
25c3l4bG_



not modelled 97.0 12 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
26c3k5pA_



not modelled 97.0 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of amino acid-binding act: d-isomer specific 2-2 hydroxyacid dehydrogenase catalytic domain from brucella melitensis
27c2dbqA_



not modelled 96.9 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:glyoxylate reductase;
PDBTitle: crystal structure of glyoxylate reductase (ph0597) from pyrococcus2 horikoshii ot3, complexed with nadp (i41)
28c2ejmA_



not modelled 96.9 32 PDB header:ligase
Chain: A: PDB Molecule:methylcrotonoyl-coa carboxylase subunit alpha;
PDBTitle: solution structure of ruh-072, an apo-biotnyl domain form2 human acetyl coenzyme a carboxylase
29c2cukC_



not modelled 96.8 24 PDB header:oxidoreductase
Chain: C: PDB Molecule:glycerate dehydrogenase/glyoxylate reductase;
PDBTitle: crystal structure of tt0316 protein from thermus thermophilus hb8
30c1dxyA_



not modelled 96.8 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-2-hydroxyisocaproate dehydrogenase;
PDBTitle: structure of d-2-hydroxyisocaproate dehydrogenase
31c3orqA_



not modelled 96.7 16 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
32c1ybaC_



not modelled 96.7 22 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: the active form of phosphoglycerate dehydrogenase
33d1kjqa2



not modelled 96.7 15 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
34c3evtA_



not modelled 96.7 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from2 lactobacillus plantarum
35c1wwkA_



not modelled 96.7 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of phosphoglycerate dehydrogenase from pyrococcus2 horikoshii ot3
36d1id1a_



not modelled 96.6 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
37c2gcgB_



not modelled 96.6 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate reductase/hydroxypyruvate reductase;
PDBTitle: ternary crystal structure of human glyoxylate2 reductase/hydroxypyruvate reductase
38c3kboB_



not modelled 96.6 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate/hydroxypyruvate reductase a;
PDBTitle: 2.14 angstrom crystal structure of putative oxidoreductase (ycdw) from2 salmonella typhimurium in complex with nadp
39c1xdwA_



not modelled 96.6 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad+-dependent (r)-2-hydroxyglutarate
PDBTitle: nad+-dependent (r)-2-hydroxyglutarate dehydrogenase from2 acidaminococcus fermentans
40c3hg7A_



not modelled 96.6 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-isomer specific 2-hydroxyacid dehydrogenase family
PDBTitle: crystal structure of d-isomer specific 2-hydroxyacid dehydrogenase2 family protein from aeromonas salmonicida subsp. salmonicida a449
41d2dlda1



not modelled 96.6 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
42d1sc6a1



not modelled 96.5 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
43d1e5qa1



not modelled 96.5 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
44c2z04A_



not modelled 96.5 16 PDB header:lyase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure of phosphoribosylaminoimidazole2 carboxylase atpase subunit from aquifex aeolicus
45c2g76A_



not modelled 96.5 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of human 3-phosphoglycerate dehydrogenase
46c1j4aA_



not modelled 96.5 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-lactate dehydrogenase;
PDBTitle: insights into domain closure, substrate specificity and2 catalysis of d-lactate dehydrogenase from lactobacillus3 bulgaricus
47d1qp8a1



not modelled 96.5 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
48c1kjjA_



not modelled 96.5 14 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
49c3bazA_



not modelled 96.5 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyphenylpyruvate reductase;
PDBTitle: structure of hydroxyphenylpyruvate reductase from coleus blumei in2 complex with nadp+
50c2eklA_



not modelled 96.5 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: structure of st1218 protein from sulfolobus tokodaii
51c3q2oB_



not modelled 96.5 19 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
52c2dwcB_



not modelled 96.4 13 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
53d1j4aa1



not modelled 96.4 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
54c1gdhA_



not modelled 96.4 22 PDB header:oxidoreductase(choh (d)-nad(p)+ (a))
Chain: A: PDB Molecule:d-glycerate dehydrogenase;
PDBTitle: crystal structure of a nad-dependent d-glycerate2 dehydrogenase at 2.4 angstroms resolution
55c2omeA_



not modelled 96.4 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:c-terminal-binding protein 2;
PDBTitle: crystal structure of human ctbp2 dehydrogenase complexed with nad(h)
56c3uagA_



not modelled 96.4 16 PDB header:ligase
Chain: A: PDB Molecule:protein (udp-n-acetylmuramoyl-l-alanine:d-
PDBTitle: udp-n-acetylmuramoyl-l-alanine:d-glutamate ligase
57c1e5lA_



not modelled 96.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea
58c2j6iC_



not modelled 96.3 12 PDB header:oxidoreductase
Chain: C: PDB Molecule:formate dehydrogenase;
PDBTitle: candida boidinii formate dehydrogenase (fdh) c-terminal2 mutant
59d1iyua_



not modelled 96.3 30 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
60c3n7uD_



not modelled 96.3 15 PDB header:oxidoreductase
Chain: D: PDB Molecule:formate dehydrogenase;
PDBTitle: nad-dependent formate dehydrogenase from higher-plant arabidopsis2 thaliana in complex with nad and azide
61d1dxya1



not modelled 96.3 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
62c2pv7B_



not modelled 96.3 15 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
63c3gg9C_



not modelled 96.3 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase oxidoreductase protein;
PDBTitle: crystal structure of putative d-3-phosphoglycerate dehydrogenase2 oxidoreductase from ralstonia solanacearum
64c2d0iC_



not modelled 96.2 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure ph0520 protein from pyrococcus horikoshii ot3
65c1qp8A_



not modelled 96.2 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase;
PDBTitle: crystal structure of a putative formate dehydrogenase from2 pyrobaculum aerophilum
66c2pi1C_



not modelled 96.2 17 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-lactate dehydrogenase;
PDBTitle: crystal structure of d-lactate dehydrogenase from aquifex2 aeolicus complexed with nad and lactic acid
67d1ghja_



not modelled 96.1 26 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
68c2w2kB_



not modelled 96.1 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:d-mandelate dehydrogenase;
PDBTitle: crystal structure of the apo forms of rhodotorula graminis2 d-mandelate dehydrogenase at 1.8a.
69d2naca1



not modelled 96.0 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
70c3gvxA_



not modelled 95.9 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerate dehydrogenase related protein;
PDBTitle: crystal structure of glycerate dehydrogenase related2 protein from thermoplasma acidophilum
71c2ahrB_



not modelled 95.9 11 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
72d1ygya1



not modelled 95.9 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
73c3c85A_



not modelled 95.8 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
74d1p3da1



not modelled 95.8 17 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
75d1mx3a1



not modelled 95.8 25 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
76d1v8ba1



not modelled 95.8 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
77d1qjoa_



not modelled 95.7 29 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
78c2nacA_



not modelled 95.7 19 PDB header:oxidoreductase(aldehyde(d),nad+(a))
Chain: A: PDB Molecule:nad-dependent formate dehydrogenase;
PDBTitle: high resolution structures of holo and apo formate dehydrogenase
79c1ygyA_



not modelled 95.6 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of d-3-phosphoglycerate dehydrogenase from2 mycobacterium tuberculosis
80d1gdha1



not modelled 95.6 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
81d1li4a1



not modelled 95.6 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
82c3d4oA_



not modelled 95.5 17 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
83d1pjca1



not modelled 95.5 32 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
84c1d4fD_



not modelled 95.5 14 PDB header:hydrolase
Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase;
PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
85c2l5tA_



not modelled 95.4 30 PDB header:transferase
Chain: A: PDB Molecule:lipoamide acyltransferase;
PDBTitle: solution nmr structure of e2 lipoyl domain from thermoplasma2 acidophilum
86d1l7da1



not modelled 95.4 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
87c2axqA_



not modelled 95.4 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae
88d1k8ma_



not modelled 95.4 23 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
89c2q8iB_



not modelled 95.3 23 PDB header:transferase
Chain: B: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase component of
PDBTitle: pyruvate dehydrogenase kinase isoform 3 in complex with antitumor drug2 radicicol
90c3ketA_



not modelled 95.3 16 PDB header:transcription/dna
Chain: A: PDB Molecule:redox-sensing transcriptional repressor rex;
PDBTitle: crystal structure of a rex-family transcriptional regulatory protein2 from streptococcus agalactiae bound to a palindromic operator
91c2ew2B_



not modelled 95.1 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-dehydropantoate 2-reductase, putative;
PDBTitle: crystal structure of the putative 2-dehydropantoate 2-reductase from2 enterococcus faecalis
92d1pjqa1



not modelled 95.1 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
93d1pmra_



not modelled 95.1 24 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
94c2o4cB_



not modelled 95.1 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:erythronate-4-phosphate dehydrogenase;
PDBTitle: crystal structure of d-erythronate-4-phosphate dehydrogenase complexed2 with nad
95d2pv7a2



not modelled 95.1 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
96c2f1kD_



not modelled 95.0 10 PDB header:oxidoreductase
Chain: D: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of synechocystis arogenate dehydrogenase
97c2rirA_



not modelled 95.0 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase, a chain;
PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
98c2vouA_



not modelled 95.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,6-dihydroxypyridine hydroxylase;
PDBTitle: structure of 2,6-dihydroxypyridine-3-hydroxylase from2 arthrobacter nicotinovorans
99c1v8bA_



not modelled 94.9 15 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
100c2bryA_



not modelled 94.8 22 PDB header:transport
Chain: A: PDB Molecule:nedd9 interacting protein with calponin homology
PDBTitle: crystal structure of the native monooxygenase domain of2 mical at 1.45 a resolution
101c3n58D_



not modelled 94.8 21 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
102c3qhaB_



not modelled 94.8 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase from mycobacterium2 avium 104
103c3oetF_



not modelled 94.8 16 PDB header:oxidoreductase
Chain: F: PDB Molecule:erythronate-4-phosphate dehydrogenase;
PDBTitle: d-erythronate-4-phosphate dehydrogenase complexed with nad
104d3c96a1



not modelled 94.7 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
105c3oneA_



not modelled 94.7 15 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
106c2vhyB_



not modelled 94.7 31 PDB header:oxidoreductase
Chain: B: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of apo l-alanine dehydrogenase from2 mycobacterium tuberculosis
107c2ep9A_



not modelled 94.7 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-gulonate 3-dehydrogenase;
PDBTitle: crystal structure of the rabbit l-gulonate 3-dehydrogenase2 (nadh form)
108c3dhyC_



not modelled 94.5 19 PDB header:hydrolase
Chain: C: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structures of mycobacterium tuberculosis s-adenosyl-l-2 homocysteine hydrolase in ternary complex with substrate and3 inhibitors
109d1c1da1



not modelled 94.5 33 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
110d1gjxa_



not modelled 94.5 21 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
111d2voua1



not modelled 94.5 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
112d1reoa1



not modelled 94.5 19 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
113c3allA_



not modelled 94.4 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase;
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid2 oxygenase, mutant y270a
114c2z2vA_



not modelled 94.4 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1688;
PDBTitle: crystal structure of l-lysine dehydrogenase from2 hyperthermophilic archaeon pyrococcus horikoshii
115d2fy8a1



not modelled 94.4 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
116c2eezG_



not modelled 94.4 16 PDB header:oxidoreductase
Chain: G: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase from themus thermophilus
117d1laba_



not modelled 94.4 33 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
118c2dncA_



not modelled 94.3 26 PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase protein x component;
PDBTitle: solution structure of rsgi ruh-054, a lipoyl domain from2 human 2-oxoacid dehydrogenase
119c3ew7A_



not modelled 94.2 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lmo0794 protein;
PDBTitle: crystal structure of the lmo0794 protein from listeria2 monocytogenes. northeast structural genomics consortium3 target lmr162.
120d1y8ob1



not modelled 94.2 23 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains

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