Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP33020
DateThu Jan 5 11:50:55 GMT 2012
Unique Job IDa1413a7aaf9ab467

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3kzhA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:probable sugar kinase;
PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens
Confidence and coverage
Confidence:100.0% Coverage: 84%
305 residues ( 84% 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.
362 residues (100%) 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  MNNREKEILAILRRNPLIQQNEIADMLQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYC
Secondary structure 
SS confidence 
Disorder  ??
??
????
?????????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VVVGTINMDIRGMADIRYPQSASHPGTIHCSAGGVGRNIAHNLALLGRDVHLLSVIGDDF
Secondary structure 
SS confidence 
Disorder 
???????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  YGEMLLEETRRAGVNVSGCVRLHGQSTSTYLAIANRDDQTVLAINDTHLLEQLTPQLLNG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  SRDLLRHAGVVLADCNLTAEALEWVFTLADEIPVFVDTVSEFKAGKIKHWLAHIHTLKPT
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  LPELEILWGQAITSDADRNTAVNALHQQGVQQLFVYLPDESVYCSEKDGEQFLLTAPAHT
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  TVDSFGADDGFMAGLVYSFLEGYSFRDSARFAVACAAISRASGSLNNPTLSADNALSLVP
Secondary structure 
SS confidence 
Disorder 
??
????
??
Disorder confidence 
 
   ..
Sequence  MV
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 3kzh chain A

3D model

Region: 55 - 360
Aligned: 305
Modelled: 306
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: A: PDB Molecule:probable sugar kinase;
PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens

Phyre2

PDB 2nwh chain A

3D model

Region: 58 - 362
Aligned: 296
Modelled: 305
Confidence: 100.0%
Identity: 30%
PDB header:signaling protein,transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: carbohydrate kinase from agrobacterium tumefaciens

Phyre2

PDB 1rkd chain A

3D model

Region: 58 - 361
Aligned: 302
Modelled: 304
Confidence: 100.0%
Identity: 22%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 2pkk chain A

3D model

Region: 59 - 360
Aligned: 291
Modelled: 302
Confidence: 100.0%
Identity: 18%
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 3pl2 chain D

3D model

Region: 58 - 359
Aligned: 293
Modelled: 302
Confidence: 100.0%
Identity: 19%
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 2qcv chain A

3D model

Region: 52 - 359
Aligned: 297
Modelled: 308
Confidence: 100.0%
Identity: 18%
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 2rbc chain A

3D model

Region: 57 - 361
Aligned: 298
Modelled: 301
Confidence: 100.0%
Identity: 15%
PDB header:transferase
Chain: A: PDB Molecule:sugar kinase;
PDBTitle: crystal structure of a putative ribokinase from agrobacterium2 tumefaciens

Phyre2

PDB 2fv7 chain A domain 1

3D model

Region: 58 - 359
Aligned: 300
Modelled: 302
Confidence: 100.0%
Identity: 19%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3in1 chain A

3D model

Region: 59 - 362
Aligned: 297
Modelled: 304
Confidence: 100.0%
Identity: 23%
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: 58 - 361
Aligned: 290
Modelled: 298
Confidence: 100.0%
Identity: 17%
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 1bx4 chain A

3D model

Region: 56 - 350
Aligned: 294
Modelled: 295
Confidence: 100.0%
Identity: 17%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 1vm7 chain A

3D model

Region: 60 - 362
Aligned: 293
Modelled: 303
Confidence: 100.0%
Identity: 20%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3b1q chain D

3D model

Region: 60 - 360
Aligned: 286
Modelled: 296
Confidence: 100.0%
Identity: 15%
PDB header:transferase
Chain: D: PDB Molecule:ribokinase, putative;
PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine

Phyre2

PDB 2f02 chain A domain 1

3D model

Region: 60 - 362
Aligned: 296
Modelled: 297
Confidence: 100.0%
Identity: 19%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 3cqd chain B

3D model

Region: 58 - 361
Aligned: 299
Modelled: 303
Confidence: 100.0%
Identity: 16%
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: 55 - 362
Aligned: 300
Modelled: 308
Confidence: 100.0%
Identity: 17%
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 3loo chain C

3D model

Region: 56 - 341
Aligned: 281
Modelled: 286
Confidence: 100.0%
Identity: 17%
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

Phyre2

PDB 2xtb chain A

3D model

Region: 55 - 345
Aligned: 290
Modelled: 291
Confidence: 100.0%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of trypanosoma brucei rhodesiense2 adenosine kinase complexed with activator

Phyre2

PDB 3go6 chain B

3D model

Region: 58 - 360
Aligned: 276
Modelled: 278
Confidence: 100.0%
Identity: 18%
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 2afb chain A domain 1

3D model

Region: 58 - 359
Aligned: 296
Modelled: 301
Confidence: 100.0%
Identity: 18%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2

PDB 1bia chain A domain 1

3D model

Region: 2 - 57
Aligned: 56
Modelled: 56
Confidence: 98.6%
Identity: 29%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Biotin repressor-like

Phyre2

PDB 1i1g chain A domain 1

3D model

Region: 1 - 58
Aligned: 58
Modelled: 58
Confidence: 98.4%
Identity: 31%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2cyy chain A domain 1

3D model

Region: 1 - 58
Aligned: 58
Modelled: 58
Confidence: 98.2%
Identity: 22%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2l4a chain A

3D model

Region: 1 - 55
Aligned: 55
Modelled: 55
Confidence: 98.0%
Identity: 22%
PDB header:dna binding protein
Chain: A: PDB Molecule:leucine responsive regulatory protein;
PDBTitle: nmr structure of the dna-binding domain of e.coli lrp

Phyre2
1
c3kzhA_
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c2nwhA_
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d1rkda_
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c2pkkA_
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c3pl2D_
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c2qcvA_
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c2rbcA_
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d2fv7a1
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c3in1A_
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c2c49A_
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d1bx4a_
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d1vm7a_
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c3b1qD_
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d2f02a1
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c3cqdB_
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c2jg1C_
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c3looC_
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c2xtbA_
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c3go6B_
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d2afba1
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d1biaa1
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d2cyya1
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c2l4aA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3kzhA_
100.0 27 PDB header:transferase
Chain: A: PDB Molecule:probable sugar kinase;
PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens
2c2nwhA_
100.0 30 PDB header:signaling protein,transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: carbohydrate kinase from agrobacterium tumefaciens
3d1rkda_
100.0 22 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
4c2pkkA_
100.0 18 PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine
5c3pl2D_
100.0 19 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
6c2qcvA_
100.0 18 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
7c2rbcA_
100.0 15 PDB header:transferase
Chain: A: PDB Molecule:sugar kinase;
PDBTitle: crystal structure of a putative ribokinase from agrobacterium2 tumefaciens
8d2fv7a1
100.0 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
9c3in1A_
100.0 23 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
10c2c49A_
100.0 17 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
11d1bx4a_
100.0 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
12d1vm7a_
100.0 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
13c3b1qD_
100.0 15 PDB header:transferase
Chain: D: PDB Molecule:ribokinase, putative;
PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine
14d2f02a1
100.0 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
15c3cqdB_
100.0 16 PDB header:transferase
Chain: B: PDB Molecule:6-phosphofructokinase isozyme 2;
PDBTitle: structure of the tetrameric inhibited form of2 phosphofructokinase-2 from escherichia coli
16c2jg1C_
100.0 17 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
17c3looC_
100.0 17 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
18c2xtbA_
100.0 14 PDB header:transferase
Chain: A: PDB Molecule:adenosine kinase;
PDBTitle: crystal structure of trypanosoma brucei rhodesiense2 adenosine kinase complexed with activator
19c3go6B_
100.0 18 PDB header:transferase
Chain: B: PDB Molecule:ribokinase rbsk;
PDBTitle: crystal structure of m. tuberculosis ribokinase (rv2436) in2 complex with ribose and amp-pnp
20d2afba1
100.0 18 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
21d2abqa1
not modelled 100.0 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
22d1v19a_
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
25c3iq0B_
not modelled 100.0 16 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
26c3i3yB_
not modelled 100.0 18 PDB header:transferase
Chain: B: PDB Molecule:carbohydrate kinase;
PDBTitle: crystal structure of ribokinase in complex with d-ribose from2 klebsiella pneumoniae
27c2jg5B_
not modelled 100.0 18 PDB header:transferase
Chain: B: PDB Molecule:fructose 1-phosphate kinase;
PDBTitle: crystal structure of a putative phosphofructokinase from2 staphylococcus aureus
28d2dcna1
not modelled 100.0 14 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
29c3ktnA_
not modelled 100.0 15 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
30d2ajra1
not modelled 100.0 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
31c2varB_
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
32c3lhxA_
not modelled 100.0 19 PDB header:transferase
Chain: A: PDB Molecule:ketodeoxygluconokinase;
PDBTitle: crystal structure of a ketodeoxygluconokinase (kdgk) from2 shigella flexneri
33c3b3lC_
not modelled 100.0 17 PDB header:transferase
Chain: C: PDB Molecule:ketohexokinase;
PDBTitle: crystal structures of alternatively-spliced isoforms of human2 ketohexokinase
34c3julA_
not modelled 100.0 15 PDB header:transferase
Chain: A: PDB Molecule:lin2199 protein;
PDBTitle: crystal structure of listeria innocua d-tagatose-6-phosphate2 kinase bound with substrate
35c3gbuD_
not modelled 100.0 20 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
36c3kd6B_
not modelled 100.0 16 PDB header:transferase
Chain: B: PDB Molecule:carbohydrate kinase, pfkb family;
PDBTitle: crystal structure of nucleoside kinase from chlorobium tepidum in2 complex with amp
37c3bf5A_
not modelled 100.0 14 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
38d1tyya_
not modelled 100.0 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
39c2qhpA_
not modelled 100.0 17 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
40c1tz6B_
not modelled 100.0 19 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
41c3lkiA_
not modelled 100.0 22 PDB header:transferase
Chain: A: PDB Molecule:fructokinase;
PDBTitle: crystal structure of fructokinase with bound atp from2 xylella fastidiosa
42d1vk4a_
not modelled 100.0 15 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Ribokinase-like
43c3hj6B_
not modelled 100.0 21 PDB header:transferase
Chain: B: PDB Molecule:fructokinase;
PDBTitle: structure of halothermothrix orenii fructokinase (frk)
44c2ddmA_
not modelled 99.9 21 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
45c3mbjA_
not modelled 99.7 15 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)
46c2i5bC_
not modelled 99.7 15 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
47d1lhpa_
not modelled 99.7 23 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:PfkB-like kinase
48d1vi9a_
not modelled 99.7 19 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:PfkB-like kinase
49d1ub0a_
not modelled 99.6 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
50c3ibqA_
not modelled 99.6 14 PDB header:transferase
Chain: A: PDB Molecule:pyridoxal kinase;
PDBTitle: crystal structure of pyridoxal kinase from lactobacillus2 plantarum in complex with atp
51d1jxha_
not modelled 99.5 20 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
52c3rm5B_
not modelled 99.4 13 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
54d1v8aa_
not modelled 98.9 12 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
55d2ax3a1
not modelled 98.9 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:YjeF C-terminal domain-like
56d1kyha_
not modelled 98.7 13 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:YjeF C-terminal domain-like
57c2ax3A_
not modelled 98.7 14 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
58c2r3bA_
not modelled 98.6 12 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
59d1biaa1
98.6 29 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
60d1ekqa_
not modelled 98.5 13 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
61d1i1ga1
98.4 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
62c3k5wA_
not modelled 98.4 16 PDB header:transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: crystal structure of a carbohydrate kinase (yjef family)from2 helicobacter pylori
63d2cg4a1
not modelled 98.3 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
64c3bgkA_
not modelled 98.3 14 PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of hypothetic protein smu.573 from2 streptococcus mutans
65d1gc5a_
not modelled 98.2 13 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
66d2cyya1
98.2 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
67d2cfxa1
not modelled 98.2 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
68d1l2la_
not modelled 98.1 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
69c3nm3D_
not modelled 98.0 13 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
70c2l4aA_
98.0 22 PDB header:dna binding protein
Chain: A: PDB Molecule:leucine responsive regulatory protein;
PDBTitle: nmr structure of the dna-binding domain of e.coli lrp
71d1ua4a_
not modelled 97.9 17 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
72c2wteB_
not modelled 97.8 22 PDB header:antiviral protein
Chain: B: PDB Molecule:csa3;
PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution.
73c2cg4B_
not modelled 97.8 15 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
74c1j5yA_
not modelled 97.8 28 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, biotin repressor family;
PDBTitle: crystal structure of transcriptional regulator (tm1602) from2 thermotoga maritima at 2.3 a resolution
75c2ia0A_
not modelled 97.8 25 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative hth-type transcriptional regulator pf0864;
PDBTitle: transcriptional regulatory protein pf0864 from pyrococcus furiosus a2 member of the asnc family (pf0864)
76c3drwA_
not modelled 97.7 16 PDB header:transferase
Chain: A: PDB Molecule:adp-specific phosphofructokinase;
PDBTitle: crystal structure of a phosphofructokinase from pyrococcus2 horikoshii ot3 with amp
77c2p6tH_
not modelled 97.7 17 PDB header:transcription
Chain: H: PDB Molecule:transcriptional regulator, lrp/asnc family;
PDBTitle: crystal structure of transcriptional regulator nmb0573 and l-leucine2 complex from neisseria meningitidis
78d1j5ya1
not modelled 97.7 29 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
79c2vbzA_
not modelled 97.7 16 PDB header:dna-binding protein
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: feast or famine regulatory protein (rv3291c)from m.2 tuberculosis complexed with l-tryptophan
80c2e1cA_
not modelled 97.6 23 PDB header:transcription/dna
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph1519;
PDBTitle: structure of putative hth-type transcriptional regulator ph1519/dna2 complex
81c2dbbA_
not modelled 97.6 26 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
82c2cfxD_
not modelled 97.6 11 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
83c1i1gA_
not modelled 97.6 32 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
84c2ewnA_
not modelled 97.6 27 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
85d1stza1
not modelled 97.5 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
86d1u2xa_
not modelled 97.5 16 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:ADP-specific Phosphofructokinase/Glucokinase
87c2e7xA_
not modelled 97.5 29 PDB header:transcription regulator
Chain: A: PDB Molecule:150aa long hypothetical transcriptional regulator;
PDBTitle: structure of the lrp/asnc like transcriptional regulator from2 sulfolobus tokodaii 7 complexed with its cognate ligand
88c3i4pA_
not modelled 97.5 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
89d1jhfa1
not modelled 97.5 33 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
90c3k2zA_
not modelled 97.4 28 PDB header:hydrolase
Chain: A: PDB Molecule:lexa repressor;
PDBTitle: crystal structure of a lexa protein from thermotoga maritima
91c1z6rC_
not modelled 97.2 4 PDB header:transcription
Chain: C: PDB Molecule:mlc protein;
PDBTitle: crystal structure of mlc from escherichia coli
92c3lmmA_
not modelled 97.2 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35
93d1sfxa_
not modelled 97.2 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
94c3sztB_
not modelled 97.2 33 PDB header:transcription
Chain: B: PDB Molecule:quorum-sensing control repressor;
PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone
95c3nrvC_
not modelled 97.2 19 PDB header:transcription regulator
Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family);
PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1
96c2gqqB_
not modelled 97.1 21 PDB header:transcription
Chain: B: PDB Molecule:leucine-responsive regulatory protein;
PDBTitle: crystal structure of e. coli leucine-responsive regulatory protein2 (lrp)
97d1s3ja_
not modelled 97.1 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
98d1z05a1
not modelled 97.1 7 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
99c1z05A_
not modelled 97.1 7 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, rok family;
PDBTitle: crystal structure of the rok family transcriptional regulator, homolog2 of e.coli mlc protein.
100d1ub9a_
not modelled 97.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
101c3bj6B_
not modelled 97.0 21 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
102d2d1ha1
not modelled 97.0 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
103c2x4hA_
not modelled 97.0 30 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
104c2q0oA_
not modelled 97.0 17 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
105c2qwwB_
not modelled 97.0 19 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution
106c1zljE_
not modelled 97.0 21 PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
107d1z6ra1
not modelled 97.0 4 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
108c3g3zA_
not modelled 97.0 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
109c3bjaA_
not modelled 96.9 11 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution
110d1lnwa_
not modelled 96.9 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
111c3cjnA_
not modelled 96.9 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
112d2bv6a1
not modelled 96.9 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
113d1yioa1
not modelled 96.9 29 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
114c3k0lA_
not modelled 96.9 17 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
115d1a04a1
not modelled 96.9 29 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
116c2nyxB_
not modelled 96.8 16 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
117c1h0mD_
not modelled 96.8 17 PDB header:transcription/dna
Chain: D: PDB Molecule:transcriptional activator protein trar;
PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna
118d2fbia1
not modelled 96.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
119c2hoeA_
not modelled 96.8 23 PDB header:transferase
Chain: A: PDB Molecule:n-acetylglucosamine kinase;
PDBTitle: crystal structure of n-acetylglucosamine kinase (tm1224) from2 thermotoga maritima at 2.46 a resolution
120c1b4aA_
not modelled 96.8 26 PDB header:repressor
Chain: A: PDB Molecule:arginine repressor;
PDBTitle: structure of the arginine repressor from bacillus stearothermophilus

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