Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP06966
DateThu Jan 5 10:59:34 GMT 2012
Unique Job ID5f85b005d04d0e18

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3ivpD_
Top template information
PDB header:dna binding protein
Chain: D: PDB Molecule:putative transposon-related dna-binding protein;
PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.
Confidence and coverage
Confidence: 99.7% Coverage: 79%
106 residues ( 79% of your sequence) have been modelled with 99.7% 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  METKNLTIGERIRYRRKNLKHTQRSLAKALKISHVSVSQWERGDSEPTGKNLFALSKVLQ
Secondary structure 



















SS confidence 



























































Disorder  ???????











??





















?????











Disorder confidence 



























































 
   .........70.........80.........90.........100.........110.........120
Sequence  CSPTWILFGDEDKQPTPPVEKPVALSPKELELLELFNALPESEQDTQLAEMRARVKNFNK
Secondary structure 
















SS confidence 



























































Disorder 









???????????????


































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   .........130.....
Sequence  LFEELLKARQRTNKR
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 3ivp chain D

3D model

Region: 2 - 117
Aligned: 106
Modelled: 116
Confidence: 99.7%
Identity: 18%
PDB header:dna binding protein
Chain: D: PDB Molecule:putative transposon-related dna-binding protein;
PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.

Phyre2

PDB 3op9 chain A

3D model

Region: 4 - 118
Aligned: 105
Modelled: 115
Confidence: 99.7%
Identity: 13%
PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua

Phyre2

PDB 3lis chain B

3D model

Region: 8 - 113
Aligned: 90
Modelled: 90
Confidence: 99.7%
Identity: 24%
PDB header:transcription
Chain: B: PDB Molecule:csp231i c protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form)

Phyre2

PDB 1y9q chain A

3D model

Region: 3 - 71
Aligned: 69
Modelled: 68
Confidence: 99.7%
Identity: 23%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, hth_3 family;
PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae

Phyre2

PDB 2kpj chain A

3D model

Region: 1 - 85
Aligned: 85
Modelled: 85
Confidence: 99.7%
Identity: 19%
PDB header:transcription regulator
Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa;
PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a

Phyre2

PDB 1b0n chain A

3D model

Region: 8 - 116
Aligned: 100
Modelled: 109
Confidence: 99.7%
Identity: 23%
PDB header:transcription regulator
Chain: A: PDB Molecule:protein (sinr protein);
PDBTitle: sinr protein/sini protein complex

Phyre2

PDB 1adr chain A

3D model

Region: 1 - 77
Aligned: 75
Modelled: 77
Confidence: 99.6%
Identity: 52%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2bno chain A

3D model

Region: 7 - 77
Aligned: 71
Modelled: 71
Confidence: 99.6%
Identity: 24%
PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.

Phyre2

PDB 1sq8 chain A

3D model

Region: 6 - 69
Aligned: 63
Modelled: 64
Confidence: 99.6%
Identity: 32%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 3mlf chain C

3D model

Region: 4 - 81
Aligned: 78
Modelled: 78
Confidence: 99.6%
Identity: 15%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: putative transcriptional regulator from staphylococcus aureus.

Phyre2

PDB 1y9q chain A domain 1

3D model

Region: 3 - 77
Aligned: 75
Modelled: 74
Confidence: 99.6%
Identity: 21%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Probable transcriptional regulator VC1968, N-terminal domain

Phyre2

PDB 2b5a chain A domain 1

3D model

Region: 1 - 74
Aligned: 74
Modelled: 74
Confidence: 99.6%
Identity: 18%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2

PDB 2r1j chain L domain 1

3D model

Region: 8 - 70
Aligned: 63
Modelled: 63
Confidence: 99.6%
Identity: 59%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2cro chain A

3D model

Region: 6 - 70
Aligned: 64
Modelled: 65
Confidence: 99.6%
Identity: 33%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 3f52 chain A

3D model

Region: 4 - 67
Aligned: 64
Modelled: 64
Confidence: 99.6%
Identity: 28%
PDB header:transcription activator
Chain: A: PDB Molecule:clp gene regulator (clgr);
PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum

Phyre2

PDB 1y7y chain A domain 1

3D model

Region: 6 - 67
Aligned: 62
Modelled: 62
Confidence: 99.6%
Identity: 24%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2

PDB 1x57 chain A domain 1

3D model

Region: 2 - 71
Aligned: 70
Modelled: 70
Confidence: 99.6%
Identity: 19%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: EDF1-like

Phyre2

PDB 1r69 chain A

3D model

Region: 7 - 70
Aligned: 63
Modelled: 64
Confidence: 99.6%
Identity: 29%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2ewt chain A

3D model

Region: 1 - 67
Aligned: 67
Modelled: 67
Confidence: 99.6%
Identity: 21%
PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of the dna-binding domain of bldd

Phyre2

PDB 1b0n chain A domain 2

3D model

Region: 8 - 73
Aligned: 66
Modelled: 66
Confidence: 99.6%
Identity: 27%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2
1

c3ivpD_
2

c3op9A_
3

c3lisB_
4

c1y9qA_
5

c2kpjA_
6

c1b0nA_
7

d1adra_
8

c2bnoA_
9

d1sq8a_
10

c3mlfC_
11

d1y9qa1
12

d2b5aa1
13

d2r1jl1
14

d2croa_
15

c3f52A_
16

d1y7ya1
17

d1x57a1
18

d1r69a_
19

c2ewtA_
20

d1b0na2
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3ivpD_



99.7 18 PDB header:dna binding protein
Chain: D: PDB Molecule:putative transposon-related dna-binding protein;
PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.
2c3op9A_



99.7 13 PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua
3c3lisB_



99.7 24 PDB header:transcription
Chain: B: PDB Molecule:csp231i c protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form)
4c1y9qA_



99.7 23 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, hth_3 family;
PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae
5c2kpjA_



99.7 19 PDB header:transcription regulator
Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa;
PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a
6c1b0nA_



99.7 23 PDB header:transcription regulator
Chain: A: PDB Molecule:protein (sinr protein);
PDBTitle: sinr protein/sini protein complex
7d1adra_



99.6 52 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
8c2bnoA_



99.6 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
9d1sq8a_



99.6 32 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
10c3mlfC_



99.6 15 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: putative transcriptional regulator from staphylococcus aureus.
11d1y9qa1



99.6 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Probable transcriptional regulator VC1968, N-terminal domain
12d2b5aa1



99.6 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
13d2r1jl1



99.6 59 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
14d2croa_



99.6 33 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
15c3f52A_



99.6 28 PDB header:transcription activator
Chain: A: PDB Molecule:clp gene regulator (clgr);
PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
16d1y7ya1



99.6 24 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
17d1x57a1



99.6 19 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:EDF1-like
18d1r69a_



99.6 29 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
19c2ewtA_



99.6 21 PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of the dna-binding domain of bldd
20d1b0na2



99.6 27 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
21c3omtA_



not modelled 99.6 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae.
22c3clcC_



not modelled 99.6 24 PDB header:transcription regulator/dna
Chain: C: PDB Molecule:regulatory protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator
23c3bs3A_



not modelled 99.6 24 PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis
24c2xcjB_



not modelled 99.5 18 PDB header:viral protein
Chain: B: PDB Molecule:c protein;
PDBTitle: crystal structure of p2 c, the immunity repressor of2 temperate e. coli phage p2
25c3b7hA_



not modelled 99.5 17 PDB header:structural protein
Chain: A: PDB Molecule:prophage lp1 protein 11;
PDBTitle: crystal structure of the prophage lp1 protein 11
26c3f6wE_



not modelled 99.5 19 PDB header:dna binding protein
Chain: E: PDB Molecule:xre-family like protein;
PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000
27d2icta1



not modelled 99.5 27 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
28c2ebyA_



not modelled 99.5 24 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq;
PDBTitle: crystal structure of a hypothetical protein from e. coli
29d1utxa_



not modelled 99.5 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
30d1rioa_



not modelled 99.5 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
31c2jvlA_



not modelled 99.5 24 PDB header:transcription
Chain: A: PDB Molecule:trmbf1;
PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei
32c3cecA_



not modelled 99.5 23 PDB header:transcription
Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system;
PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution
33c3kxaD_



not modelled 99.5 22 PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae
34c3trbA_



not modelled 99.5 25 PDB header:dna binding protein
Chain: A: PDB Molecule:virulence-associated protein i;
PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii
35d1llib_



not modelled 99.5 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
36d1lmb3_



not modelled 99.4 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
37c2o38A_



not modelled 99.4 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: putative xre family transcriptional regulator
38d2o38a1



not modelled 99.4 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
39c2axzC_



not modelled 99.4 22 PDB header:transcription
Chain: C: PDB Molecule:prgx;
PDBTitle: crystal structure of prgx/ccf10 complex
40d2ofya1



not modelled 99.4 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
41c3eusB_



not modelled 99.4 17 PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding protein;
PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
42c3dnvB_



not modelled 99.4 23 PDB header:transcription/dna
Chain: B: PDB Molecule:hth-type transcriptional regulator hipb;
PDBTitle: mdt protein
43c2ef8A_



not modelled 99.4 22 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcription factor;
PDBTitle: crystal structure of c.ecot38is
44c3bdnB_



not modelled 99.4 18 PDB header:transcription/dna
Chain: B: PDB Molecule:lambda repressor;
PDBTitle: crystal structure of the lambda repressor
45c3t76A_



not modelled 99.4 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator vanug;
PDBTitle: crystal structure of transcriptional regulator vanug, form ii
46d2a6ca1



not modelled 99.4 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
47c2qfcB_



not modelled 99.4 24 PDB header:transcription regulation
Chain: B: PDB Molecule:plcr protein;
PDBTitle: crystal structure of bacillus thuringiensis plcr complexed with papr
48c2fjrB_



not modelled 99.3 12 PDB header:transcription regulator
Chain: B: PDB Molecule:repressor protein ci;
PDBTitle: crystal structure of bacteriophage 186
49c3pxpA_



not modelled 99.3 19 PDB header:transcription regulator
Chain: A: PDB Molecule:helix-turn-helix domain protein;
PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution
50c2wusR_



not modelled 99.3 23 PDB header:structural protein
Chain: R: PDB Molecule:putative uncharacterized protein;
PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz
51c3fymA_



not modelled 99.2 21 PDB header:dna binding protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus
52c3fmyA_



not modelled 99.1 25 PDB header:dna binding protein
Chain: A: PDB Molecule:hth-type transcriptional regulator mqsa
PDBTitle: structure of the c-terminal domain of the e. coli protein2 mqsa (ygit/b3021)
53d2ppxa1



not modelled 99.1 30 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
54c2ppxA_



not modelled 99.1 30 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein atu1735;
PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens
55c3gn5B_



not modelled 98.9 27 PDB header:dna binding protein
Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021);
PDBTitle: structure of the e. coli protein mqsa (ygit/b3021)
56c3r1fO_



not modelled 98.3 23 PDB header:transcription
Chain: O: PDB Molecule:esx-1 secretion-associated regulator espr;
PDBTitle: crystal structure of a key regulator of virulence in mycobacterium2 tuberculosis
57c3bd1B_



not modelled 97.6 17 PDB header:transcription
Chain: B: PDB Molecule:cro protein;
PDBTitle: structure of the cro protein from putative prophage element xfaso 1 in2 xylella fastidiosa strain ann-1
58d1nera_



not modelled 97.5 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
59d1dwka1



not modelled 97.2 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Cyanase N-terminal domain
60d2bnma1



not modelled 97.2 29 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
61d1lcda_



not modelled 97.0 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
62d2bjca1



not modelled 96.9 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
63d2awia1



not modelled 96.9 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:PrgX N-terminal domain-like
64c2iv1J_



not modelled 96.9 11 PDB header:lyase
Chain: J: PDB Molecule:cyanate hydratase;
PDBTitle: site directed mutagenesis of key residues involved in the2 catalytic mechanism of cyanase
65c2k9qB_



not modelled 96.8 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: solution nmr structure of hth_xre family transcriptional2 regulator bt_p548217 from bacteroides thetaiotaomicron.3 northeast structural genomics consortium target btr244.
66d2hsga1



not modelled 96.8 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
67d1ic8a2



not modelled 96.6 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:POU-specific domain
68d1efaa1



not modelled 96.6 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
69c3kjxD_



not modelled 96.4 17 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
70d1qpza1



not modelled 96.4 19 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
71c2lcvA_



not modelled 96.2 19 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional repressor cytr;
PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
72c1bdhA_



not modelled 96.2 19 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
73c2l8nA_



not modelled 96.2 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional repressor cytr;
PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna
74d1uxca_



not modelled 96.1 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
75c1ic8B_



not modelled 96.1 11 PDB header:transcription/dna
Chain: B: PDB Molecule:hepatocyte nuclear factor 1-alpha;
PDBTitle: hepatocyte nuclear factor 1a bound to dna : mody3 gene2 product
76c2auwB_



not modelled 96.1 20 PDB header:unknown function
Chain: B: PDB Molecule:hypothetical protein ne0471;
PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718
77d1uxda_



not modelled 96.1 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
78c3h5tA_



not modelled 96.0 20 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum
79c3l1pA_



not modelled 96.0 18 PDB header:transcription/dna
Chain: A: PDB Molecule:pou domain, class 5, transcription factor 1;
PDBTitle: pou protein:dna complex
80d1e3oc2



not modelled 95.8 28 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:POU-specific domain
81d1au7a2



not modelled 95.7 26 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:POU-specific domain
82c1zvvA_



not modelled 95.7 15 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
83d2csfa1



not modelled 95.7 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:CUT domain
84c3k2zA_



not modelled 95.4 11 PDB header:hydrolase
Chain: A: PDB Molecule:lexa repressor;
PDBTitle: crystal structure of a lexa protein from thermotoga maritima
85c2xsdC_



not modelled 95.0 25 PDB header:transcription/dna
Chain: C: PDB Molecule:pou domain, class 3, transcription factor 1;
PDBTitle: crystal structure of the dimeric oct-6 (pou3f1) pou domain2 bound to palindromic more dna
86c1au7B_



not modelled 95.0 25 PDB header:transcription/dna
Chain: B: PDB Molecule:protein pit-1;
PDBTitle: pit-1 mutant/dna complex
87d1s4ka_



not modelled 94.6 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:YdiL-like
88c2h8rA_



not modelled 94.4 13 PDB header:transcription activator/dna
Chain: A: PDB Molecule:hepatocyte nuclear factor 1-beta;
PDBTitle: hepatocyte nuclear factor 1b bound to dna: mody5 gene2 product
89c3d1nK_



not modelled 94.4 16 PDB header:transcription regulator/dna
Chain: K: PDB Molecule:pou domain, class 6, transcription factor 1;
PDBTitle: structure of human brn-5 transcription factor in complex2 with corticotrophin-releasing hormone gene promoter
90d1r71a_



not modelled 94.2 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
91c2w48D_



not modelled 93.9 18 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
92c1zx4B_



not modelled 93.6 28 PDB header:translation
Chain: B: PDB Molecule:plasmid partition par b protein;
PDBTitle: structure of parb bound to dna
93c2elhA_



not modelled 93.6 20 PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa
94c3mkyP_



not modelled 93.5 28 PDB header:dna binding protein/dna
Chain: P: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form
95c1hf0A_



not modelled 93.4 18 PDB header:transcription factor
Chain: A: PDB Molecule:octamer-binding transcription factor 1;
PDBTitle: crystal structure of the dna-binding domain of oct-1 bound2 to dna as a dimer
96c1r71B_



not modelled 93.3 18 PDB header:transcription/dna
Chain: B: PDB Molecule:transcriptional repressor protein korb;
PDBTitle: crystal structure of the dna binding domain of korb in2 complex with the operator dna
97d1vz0a1



not modelled 93.3 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
98d2auwa1



not modelled 93.0 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE0471 C-terminal domain-like
99d1z05a1



not modelled 92.9 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
100c3mkzU_



not modelled 92.6 18 PDB header:dna-binding protein/dna
Chain: U: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-272)-18mer complex, p21 form
101d1hlva1



not modelled 92.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
102d1x2la1



not modelled 92.4 22 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:CUT domain
103d1k78a1



not modelled 92.4 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
104c2ia0A_



not modelled 92.3 19 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)
105c2p6tH_



not modelled 92.2 14 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
106c1s7eA_



not modelled 92.0 25 PDB header:transcription
Chain: A: PDB Molecule:hepatocyte nuclear factor 6;
PDBTitle: solution structure of hnf-6
107d1i1ga1



not modelled 91.9 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
108d1bw6a_



not modelled 91.8 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
109d2o4aa1



not modelled 91.8 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:CUT domain
110d2cg4a1



not modelled 91.7 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
111d1z6ra1



not modelled 91.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
112d1rzsa_



not modelled 91.3 36 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
113c2vbzA_



not modelled 91.3 17 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
114c1u78A_



not modelled 91.2 12 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
115c1i1gA_



not modelled 90.9 22 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
116d2cyya1



not modelled 90.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
117d1s7ea2



not modelled 90.7 22 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:CUT domain
118d1wh8a_



not modelled 90.7 19 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:CUT domain
119d2jn6a1



not modelled 90.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Cgl2762-like
120d6paxa1



not modelled 90.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain

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