Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP37679
DateThu Jan 5 11:56:53 GMT 2012
Unique Job IDe054d56b4100f870

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3cqkB_
Top template information
PDB header:isomerase
Chain: B: PDB Molecule:l-ribulose-5-phosphate 3-epimerase ulae;
PDBTitle: crystal structure of l-xylulose-5-phosphate 3-epimerase ulae (form b)2 complex with zn2+ and sulfate
Confidence and coverage
Confidence:100.0% Coverage: 97%
276 residues ( 97% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MRNHQLGIYEKALAKDLSWPERLVLAKSCGFDFVEMSVDETDERLSRLDWSAAQRTSLVA
Secondary structure 
SS confidence 
Disorder  ????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  AMIETGVGIPSMCLSAHRRFPFGSRDEAVRERAREIMSKAIRLARDLGIRTIQLAGYDVY
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  YEDHDEGTRQRFAEGLAWAVEQAAASQVMLAVEIMDTAFMNSISKWKKWDEMLASPWFTV
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  YPDVGNLSAWGNDVPAELKLGIDRIAAIHLKDTQPVTGQSPGQFRDVPFGEGCVDFVGIF
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........250.........260.........270.........280......
Sequence  KTLHKLNYRGSFLIEMWTEKAKEPVLEIIQARRWIEARMQEAGFIC
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 3cqk chain B

3D model

Region: 3 - 284
Aligned: 276
Modelled: 282
Confidence: 100.0%
Identity: 60%
PDB header:isomerase
Chain: B: PDB Molecule:l-ribulose-5-phosphate 3-epimerase ulae;
PDBTitle: crystal structure of l-xylulose-5-phosphate 3-epimerase ulae (form b)2 complex with zn2+ and sulfate

Phyre2

PDB 1i60 chain A

3D model

Region: 4 - 281
Aligned: 270
Modelled: 277
Confidence: 100.0%
Identity: 14%
Fold: TIM beta/alpha-barrel
Superfamily: Xylose isomerase-like
Family: IolI-like

Phyre2

PDB 2zds chain B

3D model

Region: 6 - 279
Aligned: 272
Modelled: 274
Confidence: 100.0%
Identity: 21%
PDB header:dna binding protein
Chain: B: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of sco6571 from streptomyces coelicolor2 a3(2)

Phyre2

PDB 3kws chain B

3D model

Region: 3 - 282
Aligned: 257
Modelled: 270
Confidence: 100.0%
Identity: 15%
PDB header:isomerase
Chain: B: PDB Molecule:putative sugar isomerase;
PDBTitle: crystal structure of putative sugar isomerase (yp_001305149.1) from2 parabacteroides distasonis atcc 8503 at 1.68 a resolution

Phyre2

PDB 3dx5 chain A

3D model

Region: 4 - 278
Aligned: 261
Modelled: 274
Confidence: 100.0%
Identity: 13%
PDB header:lyase
Chain: A: PDB Molecule:uncharacterized protein asbf;
PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis

Phyre2

PDB 3cny chain A

3D model

Region: 3 - 282
Aligned: 261
Modelled: 268
Confidence: 100.0%
Identity: 18%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:inositol catabolism protein iole;
PDBTitle: crystal structure of a putative inositol catabolism protein iole2 (iole, lp_3607) from lactobacillus plantarum wcfs1 at 1.85 a3 resolution

Phyre2

PDB 2hk1 chain D

3D model

Region: 4 - 280
Aligned: 259
Modelled: 270
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: D: PDB Molecule:d-psicose 3-epimerase;
PDBTitle: crystal structure of d-psicose 3-epimerase (dpease) in the presence of2 d-fructose

Phyre2

PDB 2ou4 chain C

3D model

Region: 4 - 279
Aligned: 258
Modelled: 265
Confidence: 100.0%
Identity: 18%
PDB header:isomerase
Chain: C: PDB Molecule:d-tagatose 3-epimerase;
PDBTitle: crystal structure of d-tagatose 3-epimerase from2 pseudomonas cichorii

Phyre2

PDB 2g0w chain A domain 1

3D model

Region: 3 - 282
Aligned: 262
Modelled: 275
Confidence: 100.0%
Identity: 15%
Fold: TIM beta/alpha-barrel
Superfamily: Xylose isomerase-like
Family: IolI-like

Phyre2

PDB 3ju2 chain A

3D model

Region: 6 - 279
Aligned: 258
Modelled: 270
Confidence: 100.0%
Identity: 20%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein smc04130;
PDBTitle: crystal structure of protein smc04130 from sinorhizobium meliloti 1021

Phyre2

PDB 2qw5 chain B

3D model

Region: 18 - 283
Aligned: 252
Modelled: 254
Confidence: 100.0%
Identity: 16%
PDB header:isomerase
Chain: B: PDB Molecule:xylose isomerase-like tim barrel;
PDBTitle: crystal structure of a putative sugar phosphate isomerase/epimerase2 (ava4194) from anabaena variabilis atcc 29413 at 1.78 a resolution

Phyre2

PDB 3obe chain B

3D model

Region: 4 - 277
Aligned: 254
Modelled: 260
Confidence: 100.0%
Identity: 15%
PDB header:isomerase
Chain: B: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of a sugar phosphate isomerase/epimerase (bdi_3400)2 from parabacteroides distasonis atcc 8503 at 1.70 a resolution

Phyre2

PDB 1k77 chain A

3D model

Region: 5 - 274
Aligned: 247
Modelled: 260
Confidence: 100.0%
Identity: 14%
Fold: TIM beta/alpha-barrel
Superfamily: Xylose isomerase-like
Family: Hypothetical protein YgbM (EC1530)

Phyre2

PDB 3qxb chain B

3D model

Region: 4 - 282
Aligned: 273
Modelled: 278
Confidence: 100.0%
Identity: 14%
PDB header:isomerase
Chain: B: PDB Molecule:putative xylose isomerase;
PDBTitle: crystal structure of a putative xylose isomerase (yp_426450.1) from2 rhodospirillum rubrum atcc 11170 at 1.90 a resolution

Phyre2

PDB 3ktc chain B

3D model

Region: 5 - 285
Aligned: 265
Modelled: 263
Confidence: 100.0%
Identity: 16%
PDB header:isomerase
Chain: B: PDB Molecule:xylose isomerase;
PDBTitle: crystal structure of putative sugar isomerase (yp_050048.1) from2 erwinia carotovora atroseptica scri1043 at 1.54 a resolution

Phyre2

PDB 2zvr chain A

3D model

Region: 3 - 279
Aligned: 254
Modelled: 266
Confidence: 100.0%
Identity: 18%
PDB header:isomerase
Chain: A: PDB Molecule:uncharacterized protein tm_0416;
PDBTitle: crystal structure of a d-tagatose 3-epimerase-related2 protein from thermotoga maritima

Phyre2

PDB 3l23 chain A

3D model

Region: 4 - 277
Aligned: 252
Modelled: 262
Confidence: 100.0%
Identity: 14%
PDB header:isomerase
Chain: A: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of sugar phosphate isomerase/epimerase2 (yp_001303399.1) from parabacteroides distasonis atcc 8503 at 1.70 a3 resolution

Phyre2

PDB 3lmz chain A

3D model

Region: 4 - 279
Aligned: 236
Modelled: 247
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: A: PDB Molecule:putative sugar isomerase;
PDBTitle: crystal structure of putative sugar isomerase. (yp_001305105.1) from2 parabacteroides distasonis atcc 8503 at 1.44 a resolution

Phyre2

PDB 3p6l chain A

3D model

Region: 4 - 281
Aligned: 246
Modelled: 249
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: A: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of a sugar phosphate isomerase/epimerase (bdi_1903)2 from parabacteroides distasonis atcc 8503 at 1.85 a resolution

Phyre2

PDB 2q02 chain A domain 1

3D model

Region: 1 - 277
Aligned: 260
Modelled: 273
Confidence: 100.0%
Identity: 15%
Fold: TIM beta/alpha-barrel
Superfamily: Xylose isomerase-like
Family: IolI-like

Phyre2
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c3cqkB_
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d1i60a_
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c2zdsB_
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c3kwsB_
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c3dx5A_
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c3cnyA_
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c2hk1D_
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c2ou4C_
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d2g0wa1
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c3ju2A_
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c2qw5B_
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c3obeB_
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d1k77a_
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c3qxbB_
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c3ktcB_
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c2zvrA_
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c3l23A_
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c3lmzA_
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c3p6lA_
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d2q02a1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3cqkB_
100.0 60 PDB header:isomerase
Chain: B: PDB Molecule:l-ribulose-5-phosphate 3-epimerase ulae;
PDBTitle: crystal structure of l-xylulose-5-phosphate 3-epimerase ulae (form b)2 complex with zn2+ and sulfate
2d1i60a_
100.0 14 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:IolI-like
3c2zdsB_
100.0 21 PDB header:dna binding protein
Chain: B: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of sco6571 from streptomyces coelicolor2 a3(2)
4c3kwsB_
100.0 15 PDB header:isomerase
Chain: B: PDB Molecule:putative sugar isomerase;
PDBTitle: crystal structure of putative sugar isomerase (yp_001305149.1) from2 parabacteroides distasonis atcc 8503 at 1.68 a resolution
5c3dx5A_
100.0 13 PDB header:lyase
Chain: A: PDB Molecule:uncharacterized protein asbf;
PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis
6c3cnyA_
100.0 18 PDB header:biosynthetic protein
Chain: A: PDB Molecule:inositol catabolism protein iole;
PDBTitle: crystal structure of a putative inositol catabolism protein iole2 (iole, lp_3607) from lactobacillus plantarum wcfs1 at 1.85 a3 resolution
7c2hk1D_
100.0 17 PDB header:isomerase
Chain: D: PDB Molecule:d-psicose 3-epimerase;
PDBTitle: crystal structure of d-psicose 3-epimerase (dpease) in the presence of2 d-fructose
8c2ou4C_
100.0 18 PDB header:isomerase
Chain: C: PDB Molecule:d-tagatose 3-epimerase;
PDBTitle: crystal structure of d-tagatose 3-epimerase from2 pseudomonas cichorii
9d2g0wa1
100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:IolI-like
10c3ju2A_
100.0 20 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein smc04130;
PDBTitle: crystal structure of protein smc04130 from sinorhizobium meliloti 1021
11c2qw5B_
100.0 16 PDB header:isomerase
Chain: B: PDB Molecule:xylose isomerase-like tim barrel;
PDBTitle: crystal structure of a putative sugar phosphate isomerase/epimerase2 (ava4194) from anabaena variabilis atcc 29413 at 1.78 a resolution
12c3obeB_
100.0 15 PDB header:isomerase
Chain: B: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of a sugar phosphate isomerase/epimerase (bdi_3400)2 from parabacteroides distasonis atcc 8503 at 1.70 a resolution
13d1k77a_
100.0 14 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Hypothetical protein YgbM (EC1530)
14c3qxbB_
100.0 14 PDB header:isomerase
Chain: B: PDB Molecule:putative xylose isomerase;
PDBTitle: crystal structure of a putative xylose isomerase (yp_426450.1) from2 rhodospirillum rubrum atcc 11170 at 1.90 a resolution
15c3ktcB_
100.0 16 PDB header:isomerase
Chain: B: PDB Molecule:xylose isomerase;
PDBTitle: crystal structure of putative sugar isomerase (yp_050048.1) from2 erwinia carotovora atroseptica scri1043 at 1.54 a resolution
16c2zvrA_
100.0 18 PDB header:isomerase
Chain: A: PDB Molecule:uncharacterized protein tm_0416;
PDBTitle: crystal structure of a d-tagatose 3-epimerase-related2 protein from thermotoga maritima
17c3l23A_
100.0 14 PDB header:isomerase
Chain: A: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of sugar phosphate isomerase/epimerase2 (yp_001303399.1) from parabacteroides distasonis atcc 8503 at 1.70 a3 resolution
18c3lmzA_
100.0 17 PDB header:isomerase
Chain: A: PDB Molecule:putative sugar isomerase;
PDBTitle: crystal structure of putative sugar isomerase. (yp_001305105.1) from2 parabacteroides distasonis atcc 8503 at 1.44 a resolution
19c3p6lA_
100.0 17 PDB header:isomerase
Chain: A: PDB Molecule:sugar phosphate isomerase/epimerase;
PDBTitle: crystal structure of a sugar phosphate isomerase/epimerase (bdi_1903)2 from parabacteroides distasonis atcc 8503 at 1.85 a resolution
20d2q02a1
100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:IolI-like
21c3ngfA_
not modelled 100.0 14 PDB header:isomerase
Chain: A: PDB Molecule:ap endonuclease, family 2;
PDBTitle: crystal structure of ap endonuclease, family 2 from brucella2 melitensis
22d1xp3a1
not modelled 100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Endonuclease IV
23d1qtwa_
not modelled 100.0 13 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Endonuclease IV
24c2x7vA_
not modelled 100.0 15 PDB header:hydrolase
Chain: A: PDB Molecule:probable endonuclease 4;
PDBTitle: crystal structure of thermotoga maritima endonuclease iv in2 the presence of zinc
25d1yx1a1
not modelled 100.0 17 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:KguE-like
26d1muwa_
not modelled 100.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
27d1bxba_
not modelled 100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
28d1qt1a_
not modelled 100.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
29d1tz9a_
not modelled 100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:UxuA-like
30d2glka1
not modelled 100.0 17 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
31d1bxca_
not modelled 100.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
32c3aamA_
not modelled 100.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease iv;
PDBTitle: crystal structure of endonuclease iv from thermus thermophilus hb8
33d1xima_
not modelled 100.0 17 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
34c3bdkB_
not modelled 100.0 19 PDB header:lyase
Chain: B: PDB Molecule:d-mannonate dehydratase;
PDBTitle: crystal structure of streptococcus suis mannonate2 dehydratase complexed with substrate analogue
35d1xlma_
not modelled 99.9 16 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
36c2i56A_
not modelled 99.8 17 PDB header:isomerase, metal-binding protein
Chain: A: PDB Molecule:l-rhamnose isomerase;
PDBTitle: crystal structure of l-rhamnose isomerase from pseudomonas2 stutzeri with l-rhamnose
37d1a0ea_
not modelled 99.8 11 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
38d1a0ca_
not modelled 99.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
39d1a0da_
not modelled 99.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
40c3bzjA_
not modelled 99.6 18 PDB header:hydrolase
Chain: A: PDB Molecule:uv endonuclease;
PDBTitle: uvde k229l
41c3bwwA_
not modelled 99.1 15 PDB header:metal binding protein
Chain: A: PDB Molecule:protein of unknown function duf692/cog3220;
PDBTitle: crystal structure of a duf692 family protein (hs_1138) from2 haemophilus somnus 129pt at 2.20 a resolution
42d1d8wa_
not modelled 98.3 13 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:L-rhamnose isomerase
43c3p14C_
not modelled 98.2 11 PDB header:isomerase
Chain: C: PDB Molecule:l-rhamnose isomerase;
PDBTitle: crystal structure of l-rhamnose isomerase with a novel high thermo-2 stability from bacillus halodurans
44d1qwga_
not modelled 96.5 22 Fold:TIM beta/alpha-barrel
Superfamily:(2r)-phospho-3-sulfolactate synthase ComA
Family:(2r)-phospho-3-sulfolactate synthase ComA
45c3a24A_
not modelled 96.5 15 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-galactosidase;
PDBTitle: crystal structure of bt1871 retaining glycosidase
46d1m5wa_
not modelled 96.4 18 Fold:TIM beta/alpha-barrel
Superfamily:Pyridoxine 5'-phosphate synthase
Family:Pyridoxine 5'-phosphate synthase
47c2bdqA_
not modelled 96.3 13 PDB header:metal transport
Chain: A: PDB Molecule:copper homeostasis protein cutc;
PDBTitle: crystal structure of the putative copper homeostasis2 protein cutc from streptococcus agalactiae, northeast3 strucural genomics target sar15.
48c2nx9B_
not modelled 96.2 12 PDB header:lyase
Chain: B: PDB Molecule:oxaloacetate decarboxylase 2, subunit alpha;
PDBTitle: crystal structure of the carboxyltransferase domain of the2 oxaloacetate decarboxylase na+ pump from vibrio cholerae
49d1h1ya_
not modelled 96.2 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
50c3gk0H_
not modelled 96.1 21 PDB header:transferase
Chain: H: PDB Molecule:pyridoxine 5'-phosphate synthase;
PDBTitle: crystal structure of pyridoxal phosphate biosynthetic2 protein from burkholderia pseudomallei
51d2fiqa1
not modelled 96.1 16 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:GatZ-like
52c3ivuB_
not modelled 96.0 13 PDB header:transferase
Chain: B: PDB Molecule:homocitrate synthase, mitochondrial;
PDBTitle: homocitrate synthase lys4 bound to 2-og
53c3qc3B_
not modelled 95.7 9 PDB header:isomerase
Chain: B: PDB Molecule:d-ribulose-5-phosphate-3-epimerase;
PDBTitle: crystal structure of a d-ribulose-5-phosphate-3-epimerase (np_954699)2 from homo sapiens at 2.20 a resolution
54d1tqja_
not modelled 95.4 9 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
55d1d7ka2
not modelled 95.2 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
56c2vg2C_
not modelled 95.1 8 PDB header:transferase
Chain: C: PDB Molecule:undecaprenyl pyrophosphate synthetase;
PDBTitle: rv2361 with ipp
57c3o6cA_
not modelled 95.0 15 PDB header:transferase
Chain: A: PDB Molecule:pyridoxine 5'-phosphate synthase;
PDBTitle: pyridoxal phosphate biosynthetic protein pdxj from campylobacter2 jejuni
58d1f3ta2
not modelled 94.9 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
59c3bg3B_
not modelled 94.4 11 PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase, mitochondrial;
PDBTitle: crystal structure of human pyruvate carboxylase (missing2 the biotin carboxylase domain at the n-terminus)
60d1u83a_
not modelled 94.4 20 Fold:TIM beta/alpha-barrel
Superfamily:(2r)-phospho-3-sulfolactate synthase ComA
Family:(2r)-phospho-3-sulfolactate synthase ComA
61c1u83A_
not modelled 94.4 20 PDB header:lyase
Chain: A: PDB Molecule:phosphosulfolactate synthase;
PDBTitle: psl synthase from bacillus subtilis
62c2zq0B_
not modelled 94.3 16 PDB header:hydrolase
Chain: B: PDB Molecule:alpha-glucosidase (alpha-glucosidase susb);
PDBTitle: crystal structure of susb complexed with acarbose
63c3b0vD_
not modelled 94.3 9 PDB header:oxidoreductase/rna
Chain: D: PDB Molecule:trna-dihydrouridine synthase;
PDBTitle: trna-dihydrouridine synthase from thermus thermophilus in complex with2 trna
64c2h90A_
not modelled 94.2 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
65c1sr9A_
not modelled 94.2 17 PDB header:transferase
Chain: A: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of leua from mycobacterium tuberculosis
66c3hf3A_
not modelled 94.1 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:chromate reductase;
PDBTitle: old yellow enzyme from thermus scotoductus sa-01
67c2on3A_
not modelled 93.9 13 PDB header:lyase
Chain: A: PDB Molecule:ornithine decarboxylase;
PDBTitle: a structural insight into the inhibition of human and2 leishmania donovani ornithine decarboxylases by 3-aminooxy-3 1-aminopropane
68d1ps9a1
not modelled 93.9 13 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
69c3bleA_
not modelled 93.7 16 PDB header:transferase
Chain: A: PDB Molecule:citramalate synthase from leptospira interrogans;
PDBTitle: crystal structure of the catalytic domain of licms in2 complexed with malonate
70c1ydoC_
not modelled 93.6 11 PDB header:lyase
Chain: C: PDB Molecule:hmg-coa lyase;
PDBTitle: crystal structure of the bacillis subtilis hmg-coa lyase, northeast2 structural genomics target sr181.
71c1d7kB_
not modelled 93.3 13 PDB header:lyase
Chain: B: PDB Molecule:human ornithine decarboxylase;
PDBTitle: crystal structure of human ornithine decarboxylase at 2.12 angstroms resolution
72c3inpA_
not modelled 92.8 12 PDB header:isomerase
Chain: A: PDB Molecule:d-ribulose-phosphate 3-epimerase;
PDBTitle: 2.05 angstrom resolution crystal structure of d-ribulose-phosphate 3-2 epimerase from francisella tularensis.
73c3aysA_
not modelled 92.7 10 PDB header:hydrolase
Chain: A: PDB Molecule:endoglucanase;
PDBTitle: gh5 endoglucanase from a ruminal fungus in complex with cellotriose
74d1vyra_
not modelled 92.5 15 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
75d1vlia2
not modelled 92.4 15 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:NeuB-like
76c2xioA_
not modelled 92.2 10 PDB header:hydrolase
Chain: A: PDB Molecule:putative deoxyribonuclease tatdn1;
PDBTitle: structure of putative deoxyribonuclease tatdn1 isoform a
77c1xc6A_
not modelled 92.2 12 PDB header:hydrolase
Chain: A: PDB Molecule:beta-galactosidase;
PDBTitle: native structure of beta-galactosidase from penicillium sp. in complex2 with galactose
78c3btnA_
not modelled 92.2 13 PDB header:biosynthetic protein
Chain: A: PDB Molecule:antizyme inhibitor 1;
PDBTitle: crystal structure of antizyme inhibitor, an ornithine2 decarboxylase homologous protein
79d1gcya2
not modelled 92.1 19 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
80d1uuqa_
not modelled 91.9 8 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
81c1uz4A_
not modelled 91.9 8 PDB header:hydrolase
Chain: A: PDB Molecule:man5a;
PDBTitle: common inhibition of beta-glucosidase and beta-mannosidase2 by isofagomine lactam reflects different conformational3 intineraries for glucoside and mannoside hydrolysis
82d7odca2
not modelled 91.8 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
83c2ftpA_
not modelled 91.7 17 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of hydroxymethylglutaryl-coa lyase from pseudomonas2 aeruginosa
84d1f75a_
not modelled 91.3 12 Fold:Undecaprenyl diphosphate synthase
Superfamily:Undecaprenyl diphosphate synthase
Family:Undecaprenyl diphosphate synthase
85c3tr9A_
not modelled 91.0 15 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: structure of a dihydropteroate synthase (folp) in complex with pteroic2 acid from coxiella burnetii
86c2y5sA_
not modelled 90.8 18 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: crystal structure of burkholderia cenocepacia dihydropteroate2 synthase complexed with 7,8-dihydropteroate.
87c2ekgB_
not modelled 90.5 8 PDB header:oxidoreductase
Chain: B: PDB Molecule:proline dehydrogenase/delta-1-pyrroline-5-carboxylate
PDBTitle: structure of thermus thermophilus proline dehydrogenase inactivated by2 n-propargylglycine
88d2zdra2
not modelled 90.3 16 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:NeuB-like
89d1nvma2
not modelled 90.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:HMGL-like
90c3ugsB_
not modelled 89.9 11 PDB header:transferase
Chain: B: PDB Molecule:undecaprenyl pyrophosphate synthase;
PDBTitle: crystal structure of a probable undecaprenyl diphosphate synthase2 (upps) from campylobacter jejuni
91c2p3eA_
not modelled 89.8 10 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of aq1208 from aquifex aeolicus
92c2d2rA_
not modelled 89.5 6 PDB header:transferase
Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase;
PDBTitle: crystal structure of helicobacter pylori undecaprenyl pyrophosphate2 synthase
93d1olta_
not modelled 89.3 14 Fold:TIM beta/alpha-barrel
Superfamily:Radical SAM enzymes
Family:Oxygen-independent coproporphyrinogen III oxidase HemN
94d1tg7a5
not modelled 89.2 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Glycosyl hydrolases family 35 catalytic domain
95c2yswB_
not modelled 88.6 18 PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystal structure of the 3-dehydroquinate dehydratase from aquifex2 aeolicus vf5
96c2qghA_
not modelled 88.6 9 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of diaminopimelate decarboxylase from helicobacter2 pylori complexed with l-lysine
97c1jp3A_
not modelled 88.4 16 PDB header:transferase
Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase;
PDBTitle: structure of e.coli undecaprenyl pyrophosphate synthase
98d1g94a2
not modelled 88.3 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
99d1tqxa_
not modelled 88.3 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
100d2c0ha1
not modelled 88.3 6 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
101c1ydnA_
not modelled 88.3 16 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of the hmg-coa lyase from brucella melitensis,2 northeast structural genomics target lr35.
102d1vema2
not modelled 88.2 11 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
103d1ji1a3
not modelled 88.1 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
104c3blpX_
not modelled 88.1 20 PDB header:hydrolase
Chain: X: PDB Molecule:alpha-amylase 1;
PDBTitle: role of aromatic residues in human salivary alpha-amylase
105c1jdaA_
not modelled 88.0 25 PDB header:hydrolase
Chain: A: PDB Molecule:1,4-alpha maltotetrahydrolase;
PDBTitle: maltotetraose-forming exo-amylase
106d1z41a1
not modelled 88.0 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
107c1j0yD_
not modelled 88.0 12 PDB header:hydrolase
Chain: D: PDB Molecule:beta-amylase;
PDBTitle: beta-amylase from bacillus cereus var. mycoides in complex2 with glucose
108c2yfnA_
not modelled 87.9 11 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-galactosidase-sucrose kinase agask;
PDBTitle: galactosidase domain of alpha-galactosidase-sucrose kinase,2 agask
109d1e43a2
not modelled 87.7 6 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
110c2p10D_
not modelled 87.6 12 PDB header:hydrolase
Chain: D: PDB Molecule:mll9387 protein;
PDBTitle: crystal structure of a putative phosphonopyruvate hydrolase (mll9387)2 from mesorhizobium loti maff303099 at 2.15 a resolution
111d1rh9a1
not modelled 87.4 9 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
112c2aaaA_
not modelled 87.3 21 PDB header:glycosidase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: calcium binding in alpha-amylases: an x-ray diffraction2 study at 2.1 angstroms resolution of two enzymes from3 aspergillus
113c3cu2A_
not modelled 87.3 10 PDB header:isomerase
Chain: A: PDB Molecule:ribulose-5-phosphate 3-epimerase;
PDBTitle: crystal structure of ribulose-5-phosphate 3-epimerase (yp_718263.1)2 from haemophilus somnus 129pt at 1.91 a resolution
114c1ps9A_
not modelled 87.1 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,4-dienoyl-coa reductase;
PDBTitle: the crystal structure and reaction mechanism of e. coli 2,4-2 dienoyl coa reductase
115d1rpxa_
not modelled 87.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
116d1e0ta2
not modelled 87.0 12 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
117c3pzqA_
not modelled 87.0 20 PDB header:hydrolase
Chain: A: PDB Molecule:mannan endo-1,4-beta-mannosidase. glycosyl hydrolase family
PDBTitle: structure of the hyperthermostable endo-1,4-beta-d-mannanase from2 thermotoga petrophila rku-1 with maltose and glycerol
118d1ea9c3
not modelled 86.8 19 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
119c1gcyA_
not modelled 86.7 21 PDB header:hydrolase
Chain: A: PDB Molecule:glucan 1,4-alpha-maltotetrahydrolase;
PDBTitle: high resolution crystal structure of maltotetraose-forming2 exo-amylase
120c3l55B_
not modelled 86.5 11 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:b-1,4-endoglucanase/cellulase;
PDBTitle: crystal structure of a putative beta-1,4-endoglucanase /2 cellulase from prevotella bryantii

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