Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0ACM2
DateThu Jan 5 11:18:30 GMT 2012
Unique Job IDc5d3d702e41d520d

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3c7jA_
Top template information
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
Confidence and coverage
Confidence:100.0% Coverage: 93%
213 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  MTVETQLNPTQPVNQQIYRILRRDIVHCLIAPGTPLSEKEVSVRFNVSRQPVREAFIKLA
Secondary structure 
SS confidence 
Disorder  ????????????
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  ENGLIQIRPQRGSYVNKISMAQVRNGSFIRQAIECAVARRAASMITESQCYQLEQNLHQQ
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  RIAIERKQLDDFFELDDNFHQLLTQIADCQLAWDTIENLKATVDRVRYMSFDHVSPPEML
Secondary structure 
SS confidence 
Disorder 
?
?
???
Disorder confidence 
 
   .........190.........200.........210.........220........
Sequence  LRQHLDIFSALQKRDGDAVERAMTQHLQEISESVRQIRQENSDWFSEE
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 3c7j chain A

3D model

Region: 5 - 220
Aligned: 213
Modelled: 216
Confidence: 100.0%
Identity: 18%
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 2hs5 chain A

3D model

Region: 12 - 216
Aligned: 203
Modelled: 205
Confidence: 100.0%
Identity: 20%
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 3fms chain A

3D model

Region: 12 - 221
Aligned: 204
Modelled: 210
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 3ihu chain A

3D model

Region: 12 - 216
Aligned: 202
Modelled: 195
Confidence: 100.0%
Identity: 18%
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 1e2x chain A

3D model

Region: 11 - 217
Aligned: 205
Modelled: 207
Confidence: 100.0%
Identity: 19%
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 2di3 chain A

3D model

Region: 12 - 215
Aligned: 204
Modelled: 204
Confidence: 100.0%
Identity: 19%
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 2du9 chain A

3D model

Region: 12 - 120
Aligned: 109
Modelled: 109
Confidence: 99.7%
Identity: 17%
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: 6 - 117
Aligned: 112
Modelled: 112
Confidence: 99.7%
Identity: 13%
PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni

Phyre2

PDB 3neu chain A

3D model

Region: 4 - 109
Aligned: 106
Modelled: 106
Confidence: 99.7%
Identity: 20%
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 3edp chain B

3D model

Region: 11 - 78
Aligned: 66
Modelled: 68
Confidence: 99.7%
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 3bwg chain A

3D model

Region: 15 - 90
Aligned: 76
Modelled: 76
Confidence: 99.7%
Identity: 20%
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 3eet chain A

3D model

Region: 10 - 81
Aligned: 72
Modelled: 72
Confidence: 99.7%
Identity: 25%
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: 5 - 95
Aligned: 91
Modelled: 91
Confidence: 99.6%
Identity: 22%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 3f8m chain A

3D model

Region: 13 - 95
Aligned: 82
Modelled: 83
Confidence: 99.6%
Identity: 22%
PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis

Phyre2

PDB 2hs5 chain A domain 1

3D model

Region: 12 - 79
Aligned: 68
Modelled: 68
Confidence: 99.6%
Identity: 34%
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: 15 - 90
Aligned: 76
Modelled: 76
Confidence: 99.6%
Identity: 20%
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: 10 - 82
Aligned: 73
Modelled: 73
Confidence: 99.6%
Identity: 26%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 3ic7 chain A

3D model

Region: 13 - 125
Aligned: 113
Modelled: 113
Confidence: 99.6%
Identity: 11%
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

Phyre2

PDB 3tqn chain C

3D model

Region: 10 - 94
Aligned: 81
Modelled: 85
Confidence: 99.4%
Identity: 16%
PDB header:transcription
Chain: C: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: structure of the transcriptional regulator of the gntr family, from2 coxiella burnetii.

Phyre2

PDB 1hw1 chain A domain 2

3D model

Region: 63 - 220
Aligned: 149
Modelled: 158
Confidence: 99.4%
Identity: 14%
Fold: GntR ligand-binding domain-like
Superfamily: GntR ligand-binding domain-like
Family: GntR ligand-binding domain-like

Phyre2
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c3c7jA_
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c2hs5A_
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c3fmsA_
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c3ihuA_
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c1e2xA_
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c2di3A_
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c2du9A_
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c3by6C_
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c3neuA_
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c3edpB_
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c3bwgA_
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c3eetA_
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d1v4ra1
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c3f8mA_
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d2hs5a1
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d3bwga1
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d1hw1a1
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c3ic7A_
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c3tqnC_
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d1hw1a2
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3c7jA_
100.0 18 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
2c2hs5A_
100.0 20 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
3c3fmsA_
100.0 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator
4c3ihuA_
100.0 18 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
5c1e2xA_
100.0 19 PDB header:transcriptional regulation
Chain: A: PDB Molecule:fatty acid metabolism regulator protein;
PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli
6c2di3A_
100.0 19 PDB header:transcription
Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family;
PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum
7c2du9A_
99.7 17 PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum
8c3by6C_
99.7 13 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
9c3neuA_
99.7 20 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
10c3edpB_
99.7 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
11c3bwgA_
99.7 20 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
12c3eetA_
99.7 25 PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator
13d1v4ra1
99.6 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
14c3f8mA_
99.6 22 PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis
15d2hs5a1
99.6 34 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
16d3bwga1
99.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
17d1hw1a1
99.6 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
18c3ic7A_
99.6 11 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
19c3tqnC_
99.4 16 PDB header:transcription
Chain: C: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: structure of the transcriptional regulator of the gntr family, from2 coxiella burnetii.
20d1hw1a2
99.4 14 Fold:GntR ligand-binding domain-like
Superfamily:GntR ligand-binding domain-like
Family:GntR ligand-binding domain-like
21d2hs5a2
not modelled 99.3 13 Fold:GntR ligand-binding domain-like
Superfamily:GntR ligand-binding domain-like
Family:GntR ligand-binding domain-like
22c3sxkB_
not modelled 99.2 14 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: zn2+-bound fcd domain of tm0439, a putative transcriptional regulator
23c2wv0H_
not modelled 99.2 21 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 98.2 17 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 97.9 12 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
26c2it0A_
not modelled 97.8 13 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
27c3hruA_
not modelled 97.7 19 PDB header:transcription
Chain: A: PDB Molecule:metalloregulator scar;
PDBTitle: crystal structure of scar with bound zn2+
28d1biaa1
not modelled 97.6 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
29c1g3wA_
not modelled 97.5 12 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
30d1stza1
not modelled 97.5 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
31c3ctaA_
not modelled 97.2 15 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
32d1g3wa1
not modelled 97.1 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
33c2y75F_
not modelled 97.1 13 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
34c3lwfD_
not modelled 97.0 11 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
35c1fx7C_
not modelled 97.0 13 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
36d2isya1
not modelled 97.0 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
37c2x4hA_
not modelled 96.9 15 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
38c3k69A_
not modelled 96.9 8 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
39d1j5ya1
not modelled 96.8 27 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
40c3r0aB_
not modelled 96.8 14 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
41d1jhfa1
not modelled 96.8 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
42d1xd7a_
not modelled 96.7 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
43c1j5yA_
not modelled 96.6 22 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
44c3cjnA_
not modelled 96.6 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
45d1lnwa_
not modelled 96.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
46c3bj6B_
not modelled 96.5 12 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
47d1i5za1
not modelled 96.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
48d3broa1
not modelled 96.5 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
49d2fbha1
not modelled 96.4 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
50c2rdpA_
not modelled 96.4 9 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
51d3ctaa1
not modelled 96.3 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
52d2d1ha1
not modelled 96.3 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
53c2ewnA_
not modelled 96.2 18 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
54c2gxgA_
not modelled 96.2 15 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
55c3nrvC_
not modelled 96.2 13 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
56c3nqoB_
not modelled 96.2 13 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
57c3oopA_
not modelled 96.1 20 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
58c3fm5D_
not modelled 96.1 13 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
59c2qwwB_
not modelled 96.0 12 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
60d2hr3a1
not modelled 96.0 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
61d2a61a1
not modelled 96.0 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
62d3deua1
not modelled 95.9 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
63c3bjaA_
not modelled 95.9 6 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
64c2oqgA_
not modelled 95.9 21 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
65c2fa5B_
not modelled 95.8 18 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
66c3deuB_
not modelled 95.8 11 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
67c1zybA_
not modelled 95.8 15 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
68d1ylfa1
not modelled 95.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
69d2oz6a1
not modelled 95.8 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
70d1ft9a1
not modelled 95.7 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
71d2gaua1
not modelled 95.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
72d2h6ca1
not modelled 95.7 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
73c3iwzB_
not modelled 95.7 21 PDB header:transcription
Chain: B: PDB Molecule:catabolite activation-like protein;
PDBTitle: the c-di-gmp responsive global regulator clp links cell-cell signaling2 to virulence gene expression in xanthomonas campestris
74c3bddD_
not modelled 95.7 17 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
75c3g3zA_
not modelled 95.6 12 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
76c3e6mD_
not modelled 95.6 5 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.
77d2coha1
not modelled 95.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
78d2bv6a1
not modelled 95.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
79c3k0lA_
not modelled 95.6 14 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
80d2bgca1
not modelled 95.6 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
81c3d0sA_
not modelled 95.5 20 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: camp receptor protein from m.tuberculosis, camp-free form
82d1jgsa_
not modelled 95.5 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
83d1zyba1
not modelled 95.5 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
84d2etha1
not modelled 95.4 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
85d1mkma1
not modelled 95.4 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
86c3kp3B_
not modelled 95.4 16 PDB header:transcription regulator/antibiotic
Chain: B: PDB Molecule:transcriptional regulator tcar;
PDBTitle: staphylococcus epidermidis in complex with ampicillin
87c1ft9A_
not modelled 95.4 18 PDB header:transcription
Chain: A: PDB Molecule:carbon monoxide oxidation system transcription
PDBTitle: structure of the reduced (feii) co-sensing protein from r.2 rubrum
88d2cg4a1
not modelled 95.3 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
89d1lj9a_
not modelled 95.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
90d2ev0a1
not modelled 95.3 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
91c2fmyB_
not modelled 95.3 18 PDB header:dna binding protein
Chain: B: PDB Molecule:carbon monoxide oxidation system transcription regulator
PDBTitle: co-dependent transcription factor cooa from carboxydothermus2 hydrogenoformans (imidazole-bound form)
92c2v79B_
not modelled 95.3 10 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
93c2oz6A_
not modelled 95.3 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
94c3boqB_
not modelled 95.2 10 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
95d1s3ja_
not modelled 95.2 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
96c2nyxB_
not modelled 95.2 11 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
97c3f6oB_
not modelled 95.2 13 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
98d2g9wa1
not modelled 95.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
99d1i1ga1
not modelled 95.1 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
100c3s2wB_
not modelled 95.1 10 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
101c3e6dA_
not modelled 95.1 19 PDB header:transcription regulation
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: crystal structure of cprk c200s
102c3dv8A_
not modelled 95.1 7 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
103c2l4aA_
not modelled 95.0 27 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
104d1ku9a_
not modelled 95.0 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:DNA-binding protein Mj223
105c2nnnB_
not modelled 95.0 15 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
106c2gauA_
not modelled 95.0 14 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator, crp/fnr family from2 porphyromonas gingivalis (apc80792), structural genomics, mcsg
107d2fbia1
not modelled 94.9 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
108c2bgcA_
not modelled 94.9 16 PDB header:transcription
Chain: A: PDB Molecule:prfa;
PDBTitle: prfa-g145s, a constitutive active mutant of the2 transcriptional regulator in l.monocytogenes
109c1r22B_
not modelled 94.8 14 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
110d1sfxa_
not modelled 94.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
111c2ev5B_
not modelled 94.8 11 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator mntr;
PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
112c3f6vA_
not modelled 94.8 15 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
113d2cyya1
not modelled 94.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
114d2cfxa1
not modelled 94.7 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
115c2e7xA_
not modelled 94.6 14 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
116c3bpxB_
not modelled 94.6 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of marr
117c2zcwA_
not modelled 94.5 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, fnr/crp family;
PDBTitle: crystal structure of ttha1359, a transcriptional regulator,2 crp/fnr family from thermus thermophilus hb8
118c3kccA_
not modelled 94.5 19 PDB header:transcription
Chain: A: PDB Molecule:catabolite gene activator;
PDBTitle: crystal structure of d138l mutant of catabolite gene activator protein
119c2o0yB_
not modelled 94.5 13 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp.
120d1r1ta_
not modelled 94.4 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators

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