Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39399
DateThu Jan 5 12:00:34 GMT 2012
Unique Job IDbfb52c9aa2622f16

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3fmsA_
Top template information
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator
Confidence and coverage
Confidence:100.0% Coverage: 68%
207 residues ( 68% 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.
297 residues ( 98%) 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  MSRSQNLRHNVINQVIDDMARGHIPSPLPSQSALAEMYNISRTTVRHILSHLRECGVLTQ
Secondary structure 
SS confidence 
Disorder  ??????
???????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VGNDYVIARKPDHDDGFACTTASMSEQNKVFEQAFFTMINQRQLRPGETFSELQLARAAG
Secondary structure 
SS confidence 
Disorder 
????
????????????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  VSPVVVREYLLKFGRYNLIHSEKRGQWSMKQFDQSYAEQLFELREMLETHSLQHFLNLPD
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  HDPRWLQAKTMLERHRLLRDNIGNSFRMFSQLDRDFHSLLLSAADNIFFDQSLEIISVIF
Secondary structure 
SS confidence 
Disorder 
??????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  HFHYQWDESDLKQRNIIAVDEHMTILSALICRSDLDATLALRNHLNSAKQSMIRSINENT
Secondary structure 
SS confidence 
Disorder 
?????
??
Disorder confidence 
 
   ....
Sequence  RYAH
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 3fms chain A

3D model

Region: 85 - 301
Aligned: 207
Modelled: 217
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator

Phyre2

PDB 2hs5 chain A

3D model

Region: 85 - 296
Aligned: 206
Modelled: 212
Confidence: 100.0%
Identity: 17%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator gntr;
PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1

Phyre2

PDB 3ihu chain A

3D model

Region: 86 - 294
Aligned: 203
Modelled: 209
Confidence: 100.0%
Identity: 14%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution

Phyre2

PDB 2di3 chain A

3D model

Region: 6 - 295
Aligned: 221
Modelled: 228
Confidence: 100.0%
Identity: 21%
PDB header:transcription
Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family;
PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum

Phyre2

PDB 1e2x chain A

3D model

Region: 5 - 294
Aligned: 218
Modelled: 228
Confidence: 100.0%
Identity: 16%
PDB header:transcriptional regulation
Chain: A: PDB Molecule:fatty acid metabolism regulator protein;
PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli

Phyre2

PDB 3c7j chain A

3D model

Region: 75 - 300
Aligned: 219
Modelled: 226
Confidence: 100.0%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000

Phyre2

PDB 1hw1 chain A domain 2

3D model

Region: 149 - 298
Aligned: 140
Modelled: 150
Confidence: 99.8%
Identity: 11%
Fold: GntR ligand-binding domain-like
Superfamily: GntR ligand-binding domain-like
Family: GntR ligand-binding domain-like

Phyre2

PDB 3sxk chain B

3D model

Region: 150 - 296
Aligned: 135
Modelled: 147
Confidence: 99.7%
Identity: 19%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: zn2+-bound fcd domain of tm0439, a putative transcriptional regulator

Phyre2

PDB 2hs5 chain A domain 2

3D model

Region: 155 - 296
Aligned: 136
Modelled: 142
Confidence: 99.7%
Identity: 15%
Fold: GntR ligand-binding domain-like
Superfamily: GntR ligand-binding domain-like
Family: GntR ligand-binding domain-like

Phyre2

PDB 2du9 chain A

3D model

Region: 7 - 193
Aligned: 109
Modelled: 109
Confidence: 99.7%
Identity: 21%
PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum

Phyre2

PDB 3by6 chain C

3D model

Region: 2 - 192
Aligned: 111
Modelled: 111
Confidence: 99.7%
Identity: 17%
PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni

Phyre2

PDB 3bwg chain A

3D model

Region: 9 - 74
Aligned: 66
Modelled: 66
Confidence: 99.7%
Identity: 18%
PDB header:transcription regulator
Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk;
PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168

Phyre2

PDB 3neu chain A

3D model

Region: 2 - 189
Aligned: 106
Modelled: 108
Confidence: 99.6%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin1836 protein;
PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262

Phyre2

PDB 3f8m chain A

3D model

Region: 7 - 71
Aligned: 65
Modelled: 65
Confidence: 99.6%
Identity: 34%
PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis

Phyre2

PDB 3edp chain B

3D model

Region: 3 - 71
Aligned: 67
Modelled: 69
Confidence: 99.6%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:lin2111 protein;
PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262

Phyre2

PDB 3eet chain A

3D model

Region: 2 - 73
Aligned: 70
Modelled: 72
Confidence: 99.6%
Identity: 21%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator

Phyre2

PDB 1v4r chain A domain 1

3D model

Region: 4 - 72
Aligned: 69
Modelled: 69
Confidence: 99.5%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 1hw1 chain A domain 1

3D model

Region: 5 - 70
Aligned: 66
Modelled: 66
Confidence: 99.5%
Identity: 23%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 3bwg chain A domain 1

3D model

Region: 9 - 75
Aligned: 67
Modelled: 67
Confidence: 99.5%
Identity: 18%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 2hs5 chain A domain 1

3D model

Region: 85 - 153
Aligned: 69
Modelled: 69
Confidence: 99.4%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2
1
c3fmsA_
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c2hs5A_
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c3ihuA_
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c2di3A_
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c1e2xA_
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c3c7jA_
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d1hw1a2
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c3sxkB_
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d2hs5a2
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c2du9A_
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c3by6C_
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c3bwgA_
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c3neuA_
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c3f8mA_
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c3edpB_
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c3eetA_
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d1v4ra1
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d1hw1a1
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d3bwga1
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d2hs5a1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3fmsA_
100.0 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator
2c2hs5A_
100.0 17 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator gntr;
PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1
3c3ihuA_
100.0 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution
4c2di3A_
100.0 21 PDB header:transcription
Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family;
PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum
5c1e2xA_
100.0 16 PDB header:transcriptional regulation
Chain: A: PDB Molecule:fatty acid metabolism regulator protein;
PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli
6c3c7jA_
100.0 20 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000
7d1hw1a2
99.8 11 Fold:GntR ligand-binding domain-like
Superfamily:GntR ligand-binding domain-like
Family:GntR ligand-binding domain-like
8c3sxkB_
99.7 19 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: zn2+-bound fcd domain of tm0439, a putative transcriptional regulator
9d2hs5a2
99.7 15 Fold:GntR ligand-binding domain-like
Superfamily:GntR ligand-binding domain-like
Family:GntR ligand-binding domain-like
10c2du9A_
99.7 21 PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum
11c3by6C_
99.7 17 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
12c3bwgA_
99.7 18 PDB header:transcription regulator
Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk;
PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168
13c3neuA_
99.6 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin1836 protein;
PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262
14c3f8mA_
99.6 34 PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis
15c3edpB_
99.6 24 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:lin2111 protein;
PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262
16c3eetA_
99.6 21 PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator
17d1v4ra1
99.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
18d1hw1a1
99.5 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
19d3bwga1
99.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
20d2hs5a1
99.4 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
21c3tqnC_
not modelled 99.3 13 PDB header:transcription
Chain: C: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: structure of the transcriptional regulator of the gntr family, from2 coxiella burnetii.
22c3ic7A_
not modelled 99.3 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron
23c2wv0H_
not modelled 99.0 22 PDB header:transcription
Chain: H: PDB Molecule:hth-type transcriptional repressor yvoa;
PDBTitle: crystal structure of the gntr-hutc family member yvoa from2 bacillus subtilis
24c2h09A_
not modelled 98.5 18 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
25c1f5tA_
not modelled 98.3 13 PDB header:transcription/dna
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence
26c3hruA_
not modelled 98.1 15 PDB header:transcription
Chain: A: PDB Molecule:metalloregulator scar;
PDBTitle: crystal structure of scar with bound zn2+
27c2it0A_
not modelled 98.0 12 PDB header:transcription/dna
Chain: A: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii
28c1g3wA_
not modelled 97.9 13 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
29c1fx7C_
not modelled 97.5 11 PDB header:signaling protein
Chain: C: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis
30d1biaa1
not modelled 97.4 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
31c1wsuA_
not modelled 97.2 17 PDB header:translation/rna
Chain: A: PDB Molecule:selenocysteine-specific elongation factor;
PDBTitle: c-terminal domain of elongation factor selb complexed with2 secis rna
32d1stza1
not modelled 97.1 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
33c2x4hA_
not modelled 97.1 13 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
34d1jhfa1
not modelled 97.1 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
35d1g3wa1
not modelled 97.0 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
36c2plyB_
not modelled 97.0 15 PDB header:translation/rna
Chain: B: PDB Molecule:selenocysteine-specific elongation factor;
PDBTitle: structure of the mrna binding fragment of elongation factor2 selb in complex with secis rna.
37d2isya1
not modelled 96.9 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
38c2y75F_
not modelled 96.9 9 PDB header:transcription
Chain: F: PDB Molecule:hth-type transcriptional regulator cymr;
PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis
39d1j5ya1
not modelled 96.8 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
40c1p4xA_
not modelled 96.7 12 PDB header:transcription
Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue;
PDBTitle: crystal structure of sars protein from staphylococcus aureus
41c2rdpA_
not modelled 96.5 9 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
42d1i5za1
not modelled 96.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
43d2hr3a1
not modelled 96.5 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
44c3k69A_
not modelled 96.5 15 PDB header:transcription
Chain: A: PDB Molecule:putative transcription regulator;
PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution
45c1j5yA_
not modelled 96.5 16 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
46c3lwfD_
not modelled 96.5 12 PDB header:transcription regulator
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator (np_470886.1)2 from listeria innocua at 2.06 a resolution
47d2gaua1
not modelled 96.4 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
48c2pjpA_
not modelled 96.4 14 PDB header:translation/rna
Chain: A: PDB Molecule:selenocysteine-specific elongation factor;
PDBTitle: structure of the mrna-binding domain of elongation factor2 selb from e.coli in complex with secis rna
49c2qwwB_
not modelled 96.3 6 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
50d1xd7a_
not modelled 96.3 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
51d3broa1
not modelled 96.3 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
52c3bj6B_
not modelled 96.2 18 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
53c3nqoB_
not modelled 96.2 8 PDB header:transcription
Chain: B: PDB Molecule:marr-family transcriptional regulator;
PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution
54c3bjaA_
not modelled 96.1 14 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
55d2fbha1
not modelled 96.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
56d2d1ha1
not modelled 96.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
57c2ewnA_
not modelled 96.1 18 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
58c3cjnA_
not modelled 96.0 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
59c3ctaA_
not modelled 96.0 10 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
60d2a61a1
not modelled 95.9 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
61c3r0aB_
not modelled 95.9 9 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
62c2ev5B_
not modelled 95.9 12 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator mntr;
PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
63c3boqB_
not modelled 95.9 9 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
64c1u78A_
not modelled 95.8 13 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:transposable element tc3 transposase;
PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna
65d1lnwa_
not modelled 95.8 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
66d1lj9a_
not modelled 95.7 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
67d1ylfa1
not modelled 95.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
68c3fm5D_
not modelled 95.7 7 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator;
PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1
69d1jgsa_
not modelled 95.7 7 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
70c2oqgA_
not modelled 95.7 15 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
71d2b0la1
not modelled 95.6 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CodY HTH domain
72c3g3zA_
not modelled 95.5 6 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
73d2h6ca1
not modelled 95.5 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
74c2v79B_
not modelled 95.5 22 PDB header:dna-binding protein
Chain: B: PDB Molecule:dna replication protein dnad;
PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis
75d2oz6a1
not modelled 95.5 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
76c3k0lA_
not modelled 95.5 16 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
77c3oopA_
not modelled 95.4 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2960 protein;
PDBTitle: the structure of a protein with unknown function from listeria innocua2 clip11262
78c1r22B_
not modelled 95.4 25 PDB header:transcription repressor
Chain: B: PDB Molecule:transcriptional repressor smtb;
PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form
79c2gxgA_
not modelled 95.4 9 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
80c2qufB_
not modelled 95.4 18 PDB header:transcription
Chain: B: PDB Molecule:transcription factor pf0095;
PDBTitle: crystal structure of transcription factor axxa-pf0095 from pyrococcus2 furiosus
81c3bddD_
not modelled 95.4 10 PDB header:transcription
Chain: D: PDB Molecule:regulatory protein marr;
PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution
82d1s3ja_
not modelled 95.3 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
83d3ctaa1
not modelled 95.3 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
84c3pqkD_
not modelled 95.3 23 PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
85c1zybA_
not modelled 95.3 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator, crp family;
PDBTitle: crystal structure of transcription regulator from bacteroides2 thetaiotaomicron vpi-5482 at 2.15 a resolution
86d2ev0a1
not modelled 95.2 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
87d2coha1
not modelled 95.2 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
88c3s2wB_
not modelled 95.2 7 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1
89c3nrvC_
not modelled 95.2 8 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
90c3kp3B_
not modelled 95.2 14 PDB header:transcription regulator/antibiotic
Chain: B: PDB Molecule:transcriptional regulator tcar;
PDBTitle: staphylococcus epidermidis in complex with ampicillin
91c3e6mD_
not modelled 95.2 11 PDB header:transcription regulator
Chain: D: PDB Molecule:marr family transcriptional regulator;
PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.
92d1ku9a_
not modelled 95.1 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:DNA-binding protein Mj223
93d2bv6a1
not modelled 95.1 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
94d3deua1
not modelled 95.1 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
95c2nnnB_
not modelled 95.1 10 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
96c3d0sA_
not modelled 95.0 25 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: camp receptor protein from m.tuberculosis, camp-free form
97c2nyxB_
not modelled 95.0 10 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
98c2oz6A_
not modelled 94.9 22 PDB header:dna binding protein
Chain: A: PDB Molecule:virulence factor regulator;
PDBTitle: crystal structure of virulence factor regulator from pseudomonas2 aeruginosa in complex with camp
99c2fa5B_
not modelled 94.9 10 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator marr/emrr family;
PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris
100c3deuB_
not modelled 94.9 18 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator slya;
PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands
101d1pdnc_
not modelled 94.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
102c3jthA_
not modelled 94.8 18 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
103d2fbia1
not modelled 94.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
104c3dv8A_
not modelled 94.7 10 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of a putative transcriptional regulator of the2 crp/fnr family (eubrec_1222) from eubacterium rectale atcc 33656 at3 2.55 a resolution
105d2etha1
not modelled 94.7 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
106d3e5ua1
not modelled 94.7 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
107d1sfxa_
not modelled 94.7 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
108d2cg4a1
not modelled 94.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
109d1i1ga1
not modelled 94.6 30 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
110c2l4aA_
not modelled 94.6 13 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
111d2cyya1
not modelled 94.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
112d1mkma1
not modelled 94.5 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
113c3kccA_
not modelled 94.5 22 PDB header:transcription
Chain: A: PDB Molecule:catabolite gene activator;
PDBTitle: crystal structure of d138l mutant of catabolite gene activator protein
114c6paxA_
not modelled 94.5 10 PDB header:gene regulation/dna
Chain: A: PDB Molecule:homeobox protein pax-6;
PDBTitle: crystal structure of the human pax-6 paired domain-dna2 complex reveals a general model for pax protein-dna3 interactions
115c3f6vA_
not modelled 94.4 23 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
116c3e97A_
not modelled 94.4 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator of crp/fnr2 family (yp_604437.1) from deinococcus geothermalis dsm3 11300 at 1.86 a resolution
117c3e6dA_
not modelled 94.3 26 PDB header:transcription regulation
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: crystal structure of cprk c200s
118d2bgca1
not modelled 94.3 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
119c3f6oB_
not modelled 94.3 9 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
120c3hrmA_
not modelled 94.3 11 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator sarz;
PDBTitle: crystal structure of staphylococcus aureus protein sarz in sulfenic2 acid form

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