Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76419
DateThu Jan 5 12:22:54 GMT 2012
Unique Job IDadb5be4c3d9ff2fa

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1rkda_
Top template information
Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
Confidence and coverage
Confidence:100.0% Coverage: 93%
297 residues ( 93% 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  MSGARLHTLLPELTTRQSVMVVGAAVIDVIADAYALPWRGCDIELKQQSVNVGGCALNIA
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Disorder  ???????????????












































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   .........70.........80.........90.........100.........110.........120
Sequence  VALKRLGIEAGNALPLGQGVWAEMIRNRMAKEGLISLIDNAEGDNGWCLALVEPDGERTF
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   .........130.........140.........150.........160.........170.........180
Sequence  MSFSGVENQWNRQWLARLTVAPGSLLYFSGYQLASPCGELLVEWLEELQDVTPFIDFGPR
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   .........190.........200.........210.........220.........230.........240
Sequence  IGDIPDALLARIMACRPLVSLNRQEAEIAAERFALSAEITTLGKQWQEKFAAPLIVRLDK
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   .........250.........260.........270.........280.........290.........300
Sequence  EGAWYFSNDASGCIPAFPTQVVDTIGAGDSHAGGVLAGLASGLPLADAVLLGNAVASWVV
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   .........310.........320.
Sequence  GHRGGDCAPTREELLLAHKNV
Secondary structure 









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Disorder 






?









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

Domain analysis 

Hover over an aligned region to see model and summary info

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

RankAligned region

PDB 1rkd chain A

3D model

Region: 17 - 320
Aligned: 297
Modelled: 304
Confidence: 100.0%
Identity: 23%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3pl2 chain D

3D model

Region: 15 - 318
Aligned: 296
Modelled: 300
Confidence: 100.0%
Identity: 18%
PDB header:transferase
Chain: D: PDB Molecule:sugar kinase, ribokinase family;
PDBTitle: crystal structure of a 5-keto-2-deoxygluconokinase (ncgl0155, cgl0158)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.89 a3 resolution

Phyre2

PDB 1vm7 chain A

3D model

Region: 17 - 321
Aligned: 294
Modelled: 305
Confidence: 100.0%
Identity: 21%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3go6 chain B

3D model

Region: 17 - 319
Aligned: 278
Modelled: 285
Confidence: 100.0%
Identity: 22%
PDB header:transferase
Chain: B: PDB Molecule:ribokinase rbsk;
PDBTitle: crystal structure of m. tuberculosis ribokinase (rv2436) in2 complex with ribose and amp-pnp

Phyre2

PDB 3kzh chain A

3D model

Region: 15 - 321
Aligned: 299
Modelled: 307
Confidence: 100.0%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:probable sugar kinase;
PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens

Phyre2

PDB 2rbc chain A

3D model

Region: 16 - 319
Aligned: 294
Modelled: 299
Confidence: 100.0%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:sugar kinase;
PDBTitle: crystal structure of a putative ribokinase from agrobacterium2 tumefaciens

Phyre2

PDB 3in1 chain A

3D model

Region: 18 - 321
Aligned: 300
Modelled: 304
Confidence: 100.0%
Identity: 21%
PDB header:transferase
Chain: A: PDB Molecule:uncharacterized sugar kinase ydjh;
PDBTitle: crystal structure of a putative ribokinase in complex with2 adp from e.coli

Phyre2

PDB 2c49 chain A

3D model

Region: 17 - 320
Aligned: 289
Modelled: 304
Confidence: 100.0%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:sugar kinase mj0406;
PDBTitle: crystal structure of methanocaldococcus jannaschii2 nucleoside kinase - an archaeal member of the ribokinase3 family

Phyre2

PDB 1v19 chain A

3D model

Region: 17 - 318
Aligned: 288
Modelled: 302
Confidence: 100.0%
Identity: 25%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3iq0 chain B

3D model

Region: 17 - 320
Aligned: 297
Modelled: 304
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: B: PDB Molecule:putative ribokinase ii;
PDBTitle: crystal structure of a putative ribokinase ii in complex2 with atp and mg+2 from e.coli

Phyre2

PDB 2abq chain A domain 1

3D model

Region: 19 - 321
Aligned: 294
Modelled: 303
Confidence: 100.0%
Identity: 20%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 2qcv chain A

3D model

Region: 13 - 321
Aligned: 300
Modelled: 302
Confidence: 100.0%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:putative 5-dehydro-2-deoxygluconokinase;
PDBTitle: crystal structure of a putative 5-dehydro-2-deoxygluconokinase (iolc)2 from bacillus halodurans c-125 at 1.90 a resolution

Phyre2

PDB 2pkk chain A

3D model

Region: 13 - 319
Aligned: 295
Modelled: 307
Confidence: 100.0%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine

Phyre2

PDB 3cqd chain B

3D model

Region: 17 - 321
Aligned: 298
Modelled: 302
Confidence: 100.0%
Identity: 18%
PDB header:transferase
Chain: B: PDB Molecule:6-phosphofructokinase isozyme 2;
PDBTitle: structure of the tetrameric inhibited form of2 phosphofructokinase-2 from escherichia coli

Phyre2

PDB 2jg1 chain C

3D model

Region: 14 - 321
Aligned: 302
Modelled: 301
Confidence: 100.0%
Identity: 12%
PDB header:transferase
Chain: C: PDB Molecule:tagatose-6-phosphate kinase;
PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate

Phyre2

PDB 3b1q chain D

3D model

Region: 18 - 320
Aligned: 288
Modelled: 303
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: D: PDB Molecule:ribokinase, putative;
PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine

Phyre2

PDB 2xtb chain A

3D model

Region: 13 - 306
Aligned: 293
Modelled: 294
Confidence: 100.0%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of trypanosoma brucei rhodesiense2 adenosine kinase complexed with activator

Phyre2

PDB 1bx4 chain A

3D model

Region: 15 - 313
Aligned: 297
Modelled: 299
Confidence: 100.0%
Identity: 17%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 2nwh chain A

3D model

Region: 17 - 321
Aligned: 292
Modelled: 305
Confidence: 100.0%
Identity: 19%
PDB header:signaling protein,transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: carbohydrate kinase from agrobacterium tumefaciens

Phyre2

PDB 2f02 chain A domain 1

3D model

Region: 19 - 321
Aligned: 298
Modelled: 297
Confidence: 100.0%
Identity: 17%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 1qo8 chain A

3D model

Region: 1 - 73
Aligned: 45
Modelled: 45
Confidence: 85.1%
Identity: 31%
PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase

Phyre2
1

d1rkda_
2

c3pl2D_
3

d1vm7a_
4

c3go6B_
5

c3kzhA_
6

c2rbcA_
7

c3in1A_
8

c2c49A_
9

d1v19a_
10

c3iq0B_
11

d2abqa1
12

c2qcvA_
13

c2pkkA_
14

c3cqdB_
15

c2jg1C_
16

c3b1qD_
17

c2xtbA_
18

d1bx4a_
19

c2nwhA_
20

d2f02a1
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c1qo8A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1rkda_



100.0 23 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
2c3pl2D_



100.0 18 PDB header:transferase
Chain: D: PDB Molecule:sugar kinase, ribokinase family;
PDBTitle: crystal structure of a 5-keto-2-deoxygluconokinase (ncgl0155, cgl0158)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.89 a3 resolution
3d1vm7a_



100.0 21 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
4c3go6B_



100.0 22 PDB header:transferase
Chain: B: PDB Molecule:ribokinase rbsk;
PDBTitle: crystal structure of m. tuberculosis ribokinase (rv2436) in2 complex with ribose and amp-pnp
5c3kzhA_



100.0 18 PDB header:transferase
Chain: A: PDB Molecule:probable sugar kinase;
PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens
6c2rbcA_



100.0 19 PDB header:transferase
Chain: A: PDB Molecule:sugar kinase;
PDBTitle: crystal structure of a putative ribokinase from agrobacterium2 tumefaciens
7c3in1A_



100.0 21 PDB header:transferase
Chain: A: PDB Molecule:uncharacterized sugar kinase ydjh;
PDBTitle: crystal structure of a putative ribokinase in complex with2 adp from e.coli
8c2c49A_



100.0 20 PDB header:transferase
Chain: A: PDB Molecule:sugar kinase mj0406;
PDBTitle: crystal structure of methanocaldococcus jannaschii2 nucleoside kinase - an archaeal member of the ribokinase3 family
9d1v19a_



100.0 25 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
10c3iq0B_



100.0 17 PDB header:transferase
Chain: B: PDB Molecule:putative ribokinase ii;
PDBTitle: crystal structure of a putative ribokinase ii in complex2 with atp and mg+2 from e.coli
11d2abqa1



100.0 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
12c2qcvA_



100.0 20 PDB header:transferase
Chain: A: PDB Molecule:putative 5-dehydro-2-deoxygluconokinase;
PDBTitle: crystal structure of a putative 5-dehydro-2-deoxygluconokinase (iolc)2 from bacillus halodurans c-125 at 1.90 a resolution
13c2pkkA_



100.0 16 PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine
14c3cqdB_



100.0 18 PDB header:transferase
Chain: B: PDB Molecule:6-phosphofructokinase isozyme 2;
PDBTitle: structure of the tetrameric inhibited form of2 phosphofructokinase-2 from escherichia coli
15c2jg1C_



100.0 12 PDB header:transferase
Chain: C: PDB Molecule:tagatose-6-phosphate kinase;
PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate
16c3b1qD_



100.0 23 PDB header:transferase
Chain: D: PDB Molecule:ribokinase, putative;
PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine
17c2xtbA_



100.0 18 PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of trypanosoma brucei rhodesiense2 adenosine kinase complexed with activator
18d1bx4a_



100.0 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
19c2nwhA_



100.0 19 PDB header:signaling protein,transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: carbohydrate kinase from agrobacterium tumefaciens
20d2f02a1



100.0 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
21c2varB_



not modelled 100.0 17 PDB header:transferase
Chain: B: PDB Molecule:fructokinase;
PDBTitle: crystal structure of sulfolobus solfataricus 2-keto-3-2 deoxygluconate kinase complexed with 2-keto-3-3 deoxygluconate
22d2fv7a1



not modelled 100.0 21 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
23d2absa1



not modelled 100.0 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
24c2absA_



not modelled 100.0 19 PDB header:signaling protein,transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of t. gondii adenosine kinase complexed2 with amp-pcp
25c3i3yB_



not modelled 100.0 22 PDB header:transferase
Chain: B: PDB Molecule:carbohydrate kinase;
PDBTitle: crystal structure of ribokinase in complex with d-ribose from2 klebsiella pneumoniae
26d2dcna1



not modelled 100.0 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
27c2jg5B_



not modelled 100.0 19 PDB header:transferase
Chain: B: PDB Molecule:fructose 1-phosphate kinase;
PDBTitle: crystal structure of a putative phosphofructokinase from2 staphylococcus aureus
28c3gbuD_



not modelled 100.0 19 PDB header:transferase
Chain: D: PDB Molecule:uncharacterized sugar kinase ph1459;
PDBTitle: crystal structure of an uncharacterized sugar kinase ph1459 from2 pyrococcus horikoshii in complex with atp
29c3ktnA_



not modelled 100.0 14 PDB header:transferase
Chain: A: PDB Molecule:carbohydrate kinase, pfkb family;
PDBTitle: crystal structure of a putative 2-keto-3-deoxygluconate2 kinase from enterococcus faecalis
30c3looC_



not modelled 100.0 18 PDB header:transferase
Chain: C: PDB Molecule:anopheles gambiae adenosine kinase;
PDBTitle: crystal structure of anopheles gambiae adenosine kinase in complex2 with p1,p4-di(adenosine-5) tetraphosphate
31d2afba1



not modelled 100.0 14 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
32c2qhpA_



not modelled 100.0 15 PDB header:transferase
Chain: A: PDB Molecule:fructokinase;
PDBTitle: crystal structure of fructokinase (np_810670.1) from bacteroides2 thetaiotaomicron vpi-5482 at 1.80 a resolution
33d1tyya_



not modelled 100.0 23 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
34c3b3lC_



not modelled 100.0 20 PDB header:transferase
Chain: C: PDB Molecule:ketohexokinase;
PDBTitle: crystal structures of alternatively-spliced isoforms of human2 ketohexokinase
35c3bf5A_



not modelled 100.0 18 PDB header:transferase
Chain: A: PDB Molecule:ribokinase related protein;
PDBTitle: crystal structure of putative ribokinase (10640157) from thermoplasma2 acidophilum at 1.91 a resolution
36c1tz6B_



not modelled 100.0 23 PDB header:transferase
Chain: B: PDB Molecule:putative sugar kinase;
PDBTitle: crystal structure of aminoimidazole riboside kinase from2 salmonella enterica complexed with aminoimidazole riboside3 and atp analog
37c3lkiA_



not modelled 100.0 17 PDB header:transferase
Chain: A: PDB Molecule:fructokinase;
PDBTitle: crystal structure of fructokinase with bound atp from2 xylella fastidiosa
38c3kd6B_



not modelled 100.0 18 PDB header:transferase
Chain: B: PDB Molecule:carbohydrate kinase, pfkb family;
PDBTitle: crystal structure of nucleoside kinase from chlorobium tepidum in2 complex with amp
39c3julA_



not modelled 100.0 14 PDB header:transferase
Chain: A: PDB Molecule:lin2199 protein;
PDBTitle: crystal structure of listeria innocua d-tagatose-6-phosphate2 kinase bound with substrate
40d2ajra1



not modelled 100.0 12 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
41c3lhxA_



not modelled 100.0 18 PDB header:transferase
Chain: A: PDB Molecule:ketodeoxygluconokinase;
PDBTitle: crystal structure of a ketodeoxygluconokinase (kdgk) from2 shigella flexneri
42d1vk4a_



not modelled 100.0 15 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
43c3hj6B_



not modelled 100.0 18 PDB header:transferase
Chain: B: PDB Molecule:fructokinase;
PDBTitle: structure of halothermothrix orenii fructokinase (frk)
44c2ddmA_



not modelled 99.9 25 PDB header:transferase
Chain: A: PDB Molecule:pyridoxine kinase;
PDBTitle: crystal structure of pyridoxal kinase from the escherichia2 coli pdxk gene at 2.1 a resolution
45c2i5bC_



not modelled 99.8 18 PDB header:transferase
Chain: C: PDB Molecule:phosphomethylpyrimidine kinase;
PDBTitle: the crystal structure of an adp complex of bacillus2 subtilis pyridoxal kinase provides evidence for the3 parralel emergence of enzyme activity during evolution
46c3mbjA_



not modelled 99.8 13 PDB header:transferase
Chain: A: PDB Molecule:putative phosphomethylpyrimidine kinase;
PDBTitle: crystal structure of a putative phosphomethylpyrimidine kinase2 (bt_4458) from bacteroides thetaiotaomicron vpi-5482 at 2.10 a3 resolution (rhombohedral form)
47d1ub0a_



not modelled 99.7 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
48d1lhpa_



not modelled 99.7 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:PfkB-like kinase
49c3ibqA_



not modelled 99.7 13 PDB header:transferase
Chain: A: PDB Molecule:pyridoxal kinase;
PDBTitle: crystal structure of pyridoxal kinase from lactobacillus2 plantarum in complex with atp
50d1vi9a_



not modelled 99.7 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:PfkB-like kinase
51d1jxha_



not modelled 99.5 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
52c3rm5B_



not modelled 99.5 14 PDB header:transferase
Chain: B: PDB Molecule:hydroxymethylpyrimidine/phosphomethylpyrimidine kinase
PDBTitle: structure of trifunctional thi20 from yeast
53c3dzvB_



not modelled 99.2 14 PDB header:transferase
Chain: B: PDB Molecule:4-methyl-5-(beta-hydroxyethyl)thiazole kinase;
PDBTitle: crystal structure of 4-methyl-5-(beta-hydroxyethyl)thiazole2 kinase (np_816404.1) from enterococcus faecalis v583 at3 2.57 a resolution
54d1kyha_



not modelled 99.1 14 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:YjeF C-terminal domain-like
55d1v8aa_



not modelled 99.1 11 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
56d2ax3a1



not modelled 98.9 12 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:YjeF C-terminal domain-like
57d1gc5a_



not modelled 98.8 15 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
58d1ekqa_



not modelled 98.6 14 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
59d1ua4a_



not modelled 98.6 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
60d1l2la_



not modelled 98.6 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
61c2r3bA_



not modelled 98.5 13 PDB header:transferase
Chain: A: PDB Molecule:yjef-related protein;
PDBTitle: crystal structure of a ribokinase-like superfamily protein (ef1790)2 from enterococcus faecalis v583 at 1.80 a resolution
62c2ax3A_



not modelled 98.4 9 PDB header:transferase
Chain: A: PDB Molecule:hypothetical protein tm0922;
PDBTitle: crystal structure of a putative carbohydrate kinase (tm0922) from2 thermotoga maritima msb8 at 2.25 a resolution
63c3drwA_



not modelled 98.3 20 PDB header:transferase
Chain: A: PDB Molecule:adp-specific phosphofructokinase;
PDBTitle: crystal structure of a phosphofructokinase from pyrococcus2 horikoshii ot3 with amp
64c3k5wA_



not modelled 98.2 14 PDB header:transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: crystal structure of a carbohydrate kinase (yjef family)from2 helicobacter pylori
65d1u2xa_



not modelled 98.2 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
66c3nm3D_



not modelled 98.2 12 PDB header:transferase
Chain: D: PDB Molecule:thiamine biosynthetic bifunctional enzyme;
PDBTitle: the crystal structure of candida glabrata thi6, a bifunctional enzyme2 involved in thiamin biosyhthesis of eukaryotes
67c3bgkA_



not modelled 98.1 8 PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of hypothetic protein smu.573 from2 streptococcus mutans
68c1qo8A_



85.1 31 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c3 fumarate reductase;
PDBTitle: the structure of the open conformation of a flavocytochrome2 c3 fumarate reductase
69c1d4cB_



not modelled 83.0 22 PDB header:oxidoreductase
Chain: B: PDB Molecule:flavocytochrome c fumarate reductase;
PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1
70c2f00A_



not modelled 82.6 28 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate--l-alanine ligase;
PDBTitle: escherichia coli murc
71c1c0iA_



not modelled 81.3 30 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-amino acid oxidase;
PDBTitle: crystal structure of d-amino acid oxidase in complex with2 two anthranylate molecules
72c1jrxA_



not modelled 78.0 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:flavocytochrome c;
PDBTitle: crystal structure of arg402ala mutant flavocytochrome c32 from shewanella frigidimarina
73d1p3da1



not modelled 73.7 30 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
74c2e1mA_



not modelled 69.0 36 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-glutamate oxidase;
PDBTitle: crystal structure of l-glutamate oxidase from streptomyces sp. x-119-6
75d1v59a1



not modelled 69.0 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
76d1d4ca2



not modelled 67.6 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
77c1v59B_



not modelled 67.5 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:dihydrolipoamide dehydrogenase;
PDBTitle: crystal structure of yeast lipoamide dehydrogenase2 complexed with nad+
78d1c0pa1



not modelled 65.4 30 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:D-aminoacid oxidase, N-terminal domain
79c1yq4A_



not modelled 65.4 39 PDB header:oxidoreductase
Chain: A: PDB Molecule:succinate dehydrogenase flavoprotein subunit;
PDBTitle: avian respiratory complex ii with 3-nitropropionate and ubiquinone
80d1trba2



not modelled 64.5 20 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
81d1reoa1



not modelled 64.5 42 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
82d1dxla1



not modelled 61.6 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
83c3da1A_



not modelled 61.4 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: x-ray structure of the glycerol-3-phosphate dehydrogenase2 from bacillus halodurans complexed with fad. northeast3 structural genomics consortium target bhr167.
84d1ryia1



not modelled 60.6 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
85d1x94a_



not modelled 58.9 12 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
86d3lada1



not modelled 58.7 38 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
87d1h6va2



not modelled 57.9 31 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
88d2iida1



not modelled 55.8 39 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
89c1ps9A_



not modelled 55.2 38 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
90c1f8sA_



not modelled 54.4 41 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-amino acid oxidase;
PDBTitle: crystal structure of l-amino acid oxidase from calloselasma2 rhodostoma, complexed with three molecules of o-aminobenzoate.
91c2zxiC_



not modelled 53.0 27 PDB header:fad-binding protein
Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl
PDBTitle: structure of aquifex aeolicus gida in the form ii crystal
92d1trba1



not modelled 52.6 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
93c3kljA_



not modelled 52.3 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:nad(fad)-dependent dehydrogenase, nirb-family (n-terminal
PDBTitle: crystal structure of nadh:rubredoxin oxidoreductase from clostridium2 acetobutylicum
94c3v76A_



not modelled 51.7 38 PDB header:flavoprotein
Chain: A: PDB Molecule:flavoprotein;
PDBTitle: the crystal structure of a flavoprotein from sinorhizobium meliloti
95d1d7ya2



not modelled 51.6 16 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
96d1lpfa1



not modelled 50.5 38 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
97c3nlcA_



not modelled 50.3 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein vp0956;
PDBTitle: crystal structure of the vp0956 protein from vibrio parahaemolyticus.2 northeast structural genomics consortium target vpr147
98c1vdcA_



not modelled 50.2 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dependent thioredoxin reductase;
PDBTitle: structure of nadph dependent thioredoxin reductase
99d1vdca1



not modelled 50.0 25 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
100d1qo8a2



not modelled 49.6 31 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
101d1ps9a3



not modelled 49.3 38 Fold:Nucleotide-binding domain
Superfamily:Nucleotide-binding domain
Family:N-terminal domain of adrenodoxin reductase-like
102d1y0pa2



not modelled 49.0 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
103c2hkoA_



not modelled 49.0 25 PDB header:oxidoreductase
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: crystal structure of lsd1
104d1d5ta1



not modelled 48.8 15 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GDI-like N domain
105c3g05B_



not modelled 48.6 24 PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of n-terminal domain (2-550) of e.coli mnmg
106c1f6mF_



not modelled 47.6 22 PDB header:oxidoreductase
Chain: F: PDB Molecule:thioredoxin reductase;
PDBTitle: crystal structure of a complex between thioredoxin2 reductase, thioredoxin, and the nadp+ analog, aadp+
107c2rghA_



not modelled 46.6 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-glycerophosphate oxidase;
PDBTitle: structure of alpha-glycerophosphate oxidase from2 streptococcus sp.: a template for the mitochondrial alpha-3 glycerophosphate dehydrogenase
108c3i3lA_



not modelled 46.3 27 PDB header:hydrolase
Chain: A: PDB Molecule:alkylhalidase cmls;
PDBTitle: crystal structure of cmls, a flavin-dependent halogenase
109c2gqfA_



not modelled 45.5 38 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hi0933;
PDBTitle: crystal structure of flavoprotein hi0933 from haemophilus influenzae2 rd
110c3lzxB_



not modelled 45.4 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin--nadp reductase 2;
PDBTitle: crystal structure of ferredoxin-nadp+ oxidoreductase from bacillus2 subtilis (form ii)
111d3grsa2



not modelled 44.5 28 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
112c2v1dA_



not modelled 44.5 25 PDB header:oxidoreductase/repressor
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: structural basis of lsd1-corest selectivity in histone h32 recognition
113c2xagA_



not modelled 44.5 25 PDB header:transcription
Chain: A: PDB Molecule:lysine-specific histone demethylase 1;
PDBTitle: crystal structure of lsd1-corest in complex with para-bromo-2 (-)-trans-2-phenylcyclopropyl-1-amine
114d2dw4a2



not modelled 43.7 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
115d2ftsa3



not modelled 43.4 13 Fold:Molybdenum cofactor biosynthesis proteins
Superfamily:Molybdenum cofactor biosynthesis proteins
Family:MoeA central domain-like
116c1v0jB_



not modelled 43.1 33 PDB header:isomerase
Chain: B: PDB Molecule:udp-galactopyranose mutase;
PDBTitle: udp-galactopyranose mutase from mycobacterium tuberculosis
117c3k30B_



not modelled 42.4 50 PDB header:oxidoreductase
Chain: B: PDB Molecule:histamine dehydrogenase;
PDBTitle: histamine dehydrogenase from nocardiodes simplex
118c3k5iB_



not modelled 42.2 24 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
119c1tytA_



not modelled 42.1 30 PDB header:oxidoreductase
Chain: A: PDB Molecule:trypanothione reductase, oxidized form;
PDBTitle: crystal and molecular structure of crithidia fasciculata2 trypanothione reductase at 2.6 angstroms resolution
120c2v6oA_



not modelled 41.6 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin glutathione reductase;
PDBTitle: structure of schistosoma mansoni thioredoxin-glutathione2 reductase (smtgr)

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