Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A6R3
DateThu Jan 5 11:03:44 GMT 2012
Unique Job ID0264b442c21122ce

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1etob_
Top template information
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
Confidence and coverage
Confidence: 99.9% Coverage: 96%
94 residues ( 96% of your sequence) have been modelled with 99.9% 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  MFEQRVNSDVLTVSTVNSQDQVTQKPLRDSVKQALKNYFAQLNGQDVNDLYELVLAEVEQ
Secondary structure 





















SS confidence 



























































Disorder  ??????????????????????????














????????










Disorder confidence 



























































 
   .........70.........80.........90........
Sequence  PLLDMVMQYTRGNQTRAALMMGINRGTLRKKLKKYGMN
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 1eto chain B

3D model

Region: 1 - 98
Aligned: 94
Modelled: 98
Confidence: 99.9%
Identity: 100%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1fip chain A

3D model

Region: 26 - 98
Aligned: 73
Modelled: 73
Confidence: 99.8%
Identity: 99%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1etx chain A

3D model

Region: 22 - 98
Aligned: 73
Modelled: 77
Confidence: 99.8%
Identity: 96%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1ntc chain A

3D model

Region: 19 - 98
Aligned: 80
Modelled: 80
Confidence: 99.6%
Identity: 28%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 3e7l chain D

3D model

Region: 51 - 98
Aligned: 48
Modelled: 48
Confidence: 99.4%
Identity: 19%
PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain

Phyre2

PDB 1umq chain A

3D model

Region: 55 - 97
Aligned: 43
Modelled: 43
Confidence: 99.4%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1umq chain A

3D model

Region: 55 - 97
Aligned: 43
Modelled: 43
Confidence: 99.4%
Identity: 19%
PDB header:dna-binding protein
Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein;
PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity

Phyre2

PDB 1g2h chain A

3D model

Region: 44 - 98
Aligned: 54
Modelled: 55
Confidence: 99.4%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 3onq chain B

3D model

Region: 64 - 94
Aligned: 31
Modelled: 31
Confidence: 96.7%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:regulator of polyketide synthase expression;
PDBTitle: crystal structure of regulator of polyketide synthase expression2 bad_0249 from bifidobacterium adolescentis

Phyre2

PDB 2cg4 chain A domain 1

3D model

Region: 55 - 95
Aligned: 41
Modelled: 41
Confidence: 94.9%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 1ixc chain A domain 1

3D model

Region: 57 - 95
Aligned: 38
Modelled: 35
Confidence: 94.6%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: LysR-like transcriptional regulators

Phyre2

PDB 2cyy chain A domain 1

3D model

Region: 55 - 95
Aligned: 41
Modelled: 41
Confidence: 94.5%
Identity: 12%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2cob chain A domain 1

3D model

Region: 60 - 98
Aligned: 39
Modelled: 39
Confidence: 94.5%
Identity: 23%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Psq domain

Phyre2

PDB 1u78 chain A

3D model

Region: 55 - 96
Aligned: 41
Modelled: 42
Confidence: 94.2%
Identity: 20%
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

Phyre2

PDB 1b9m chain A domain 1

3D model

Region: 63 - 95
Aligned: 32
Modelled: 32
Confidence: 94.2%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: N-terminal domain of molybdate-dependent transcriptional regulator ModE

Phyre2

PDB 1i1g chain A domain 1

3D model

Region: 55 - 95
Aligned: 41
Modelled: 41
Confidence: 94.1%
Identity: 24%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2esn chain A domain 1

3D model

Region: 63 - 95
Aligned: 32
Modelled: 33
Confidence: 93.9%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: LysR-like transcriptional regulators

Phyre2

PDB 2ijl chain B

3D model

Region: 59 - 95
Aligned: 36
Modelled: 37
Confidence: 93.8%
Identity: 11%
PDB header:transcription
Chain: B: PDB Molecule:molybdenum-binding transcriptional repressor;
PDBTitle: the structure of a putative mode from agrobacterium tumefaciens.

Phyre2

PDB 2p6t chain H

3D model

Region: 54 - 95
Aligned: 42
Modelled: 42
Confidence: 93.7%
Identity: 12%
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

Phyre2

PDB 2r0q chain F

3D model

Region: 59 - 96
Aligned: 38
Modelled: 38
Confidence: 93.6%
Identity: 21%
PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex

Phyre2
1

d1etob_
2

d1fipa_
3

d1etxa_
4

d1ntca_
5

c3e7lD_
6

d1umqa_
7

c1umqA_
8

d1g2ha_
9

c3onqB_
10

d2cg4a1
11

d1ixca1
12

d2cyya1
13

d2coba1
14

c1u78A_
15

d1b9ma1
16

d1i1ga1
17

d2esna1
18

c2ijlB_
19

c2p6tH_
20

c2r0qF_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1etob_



99.9 100 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
2d1fipa_



99.8 99 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
3d1etxa_



99.8 96 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
4d1ntca_



99.6 28 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
5c3e7lD_



99.4 19 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain
6d1umqa_



99.4 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
7c1umqA_



99.4 19 PDB header:dna-binding protein
Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein;
PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity
8d1g2ha_



99.4 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
9c3onqB_



96.7 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:regulator of polyketide synthase expression;
PDBTitle: crystal structure of regulator of polyketide synthase expression2 bad_0249 from bifidobacterium adolescentis
10d2cg4a1



94.9 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
11d1ixca1



94.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LysR-like transcriptional regulators
12d2cyya1



94.5 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
13d2coba1



94.5 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Psq domain
14c1u78A_



94.2 20 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
15d1b9ma1



94.2 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:N-terminal domain of molybdate-dependent transcriptional regulator ModE
16d1i1ga1



94.1 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
17d2esna1



93.9 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LysR-like transcriptional regulators
18c2ijlB_



93.8 11 PDB header:transcription
Chain: B: PDB Molecule:molybdenum-binding transcriptional repressor;
PDBTitle: the structure of a putative mode from agrobacterium tumefaciens.
19c2p6tH_



93.7 12 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
20c2r0qF_



93.6 21 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
21c2esnC_



not modelled 93.6 16 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: the crystal structure of probable transcriptional regulator pa04772 from pseudomonas aeruginosa
22c2cg4B_



not modelled 93.6 17 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
23d2jn6a1



not modelled 93.6 27 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Cgl2762-like
24c3m1eA_



not modelled 93.5 14 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of benm_dbd
25d2cfxa1



not modelled 93.4 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
26c2dbbA_



not modelled 93.2 17 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
27c3fzvC_



not modelled 93.1 13 PDB header:transcription regulator
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of pa01 protein, putative lysr family2 transcriptional regulator from pseudomonas aeruginosa
28c3fzjC_



not modelled 93.1 10 PDB header:transcription regulator
Chain: C: PDB Molecule:lysr type regulator of tsambcd;
PDBTitle: tsar low resolution crystal structure, tetragonal form
29c1b9nA_



not modelled 93.0 16 PDB header:transcription
Chain: A: PDB Molecule:protein (mode);
PDBTitle: regulator from escherichia coli
30c2ia0A_



not modelled 93.0 15 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)
31c1iz1B_



not modelled 92.9 16 PDB header:dna binding protein
Chain: B: PDB Molecule:lysr-type regulatory protein;
PDBTitle: crystal structure of cbnr, a lysr family transcriptional2 regulator
32c3t1bB_



not modelled 92.5 13 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: crystal structure of the full-length aphb n100e variant
33c3rqiA_



not modelled 92.5 28 PDB header:transcription
Chain: A: PDB Molecule:response regulator protein;
PDBTitle: crystal structure of a response regulator protein from burkholderia2 pseudomallei with a phosphorylated aspartic acid, calcium ion and3 citrate
34c2l4aA_



not modelled 92.5 10 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
35c2vbzA_



not modelled 92.3 12 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
36c2e7xA_



not modelled 92.1 20 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
37c2e1cA_



not modelled 91.9 12 PDB header:transcription/dna
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph1519;
PDBTitle: structure of putative hth-type transcriptional regulator ph1519/dna2 complex
38c1i1gA_



not modelled 91.9 24 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
39c1z4hA_



not modelled 91.0 9 PDB header:protein binding, dna binding protein
Chain: A: PDB Molecule:tor inhibition protein;
PDBTitle: the response regulator tori belongs to a new family of2 atypical excisionase
40c2cfxD_



not modelled 91.0 5 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
41c3hhgF_



not modelled 90.7 16 PDB header:transcription regulator
Chain: F: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: structure of crga, a lysr-type transcriptional regulator from2 neisseria meningitidis.
42c2auwB_



not modelled 90.5 21 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
43c6paxA_



not modelled 90.3 13 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
44c3ispA_



not modelled 90.3 13 PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator
PDBTitle: crystal structure of argp from mycobacterium tuberculosis
45d1pdnc_



not modelled 89.7 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
46c3lsgD_



not modelled 89.6 15 PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586
47c3i4pA_



not modelled 88.9 10 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
48d2auwa1



not modelled 88.8 19 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE0471 C-terminal domain-like
49c2gqqB_



not modelled 88.5 10 PDB header:transcription
Chain: B: PDB Molecule:leucine-responsive regulatory protein;
PDBTitle: crystal structure of e. coli leucine-responsive regulatory protein2 (lrp)
50c2k9sA_



not modelled 88.2 8 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
51d1rzsa_



not modelled 87.8 23 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
52c3mklB_



not modelled 86.7 23 PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12
53c3b7hA_



not modelled 85.6 21 PDB header:structural protein
Chain: A: PDB Molecule:prophage lp1 protein 11;
PDBTitle: crystal structure of the prophage lp1 protein 11
54c3mkyP_



not modelled 85.6 15 PDB header:dna binding protein/dna
Chain: P: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form
55c1hlvA_



not modelled 85.2 19 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:major centromere autoantigen b;
PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna
56c3gbgA_



not modelled 85.1 21 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
57d1vz0a1



not modelled 84.8 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
58c3bd1B_



not modelled 84.5 11 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
59c2gm4B_



not modelled 84.3 19 PDB header:recombination, dna
Chain: B: PDB Molecule:transposon gamma-delta resolvase;
PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna
60c3mkzU_



not modelled 83.3 15 PDB header:dna-binding protein/dna
Chain: U: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-272)-18mer complex, p21 form
61c2rn7A_



not modelled 83.2 23 PDB header:unknown function
Chain: A: PDB Molecule:is629 orfa;
PDBTitle: nmr solution structure of tnpe protein from shigella2 flexneri. northeast structural genomics target sfr125
62c3oouA_



not modelled 82.9 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
63c1bl0A_



not modelled 82.5 11 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
64c3oioA_



not modelled 82.4 22 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum
65c1r71B_



not modelled 82.3 10 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
66c3t76A_



not modelled 82.3 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator vanug;
PDBTitle: crystal structure of transcriptional regulator vanug, form ii
67c3cecA_



not modelled 82.3 12 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
68d1r71a_



not modelled 81.9 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
69d1r69a_



not modelled 81.8 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
70d2o38a1



not modelled 81.4 32 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
71c2o38A_



not modelled 81.4 32 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: putative xre family transcriptional regulator
72d1j5ya1



not modelled 81.0 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
73d1hlva1



not modelled 80.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
74d2icta1



not modelled 80.7 12 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
75c1zgwA_



not modelled 80.2 18 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
76c2kfsA_



not modelled 80.0 17 PDB header:dna-binding protein
Chain: A: PDB Molecule:conserved hypothetical regulatory protein;
PDBTitle: nmr structure of rv2175c
77c3mn2B_



not modelled 79.7 8 PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009
78c2fjrB_



not modelled 79.6 14 PDB header:transcription regulator
Chain: B: PDB Molecule:repressor protein ci;
PDBTitle: crystal structure of bacteriophage 186
79c2xcjB_



not modelled 79.1 17 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
80c3hugA_



not modelled 77.9 21 PDB header:transcription/membrane protein
Chain: A: PDB Molecule:rna polymerase sigma factor;
PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl
81d1sq8a_



not modelled 77.8 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
82d2a6ca1



not modelled 77.8 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
83c1y6uA_



not modelled 77.7 17 PDB header:dna binding protein
Chain: A: PDB Molecule:excisionase from transposon tn916;
PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases
84c3omtA_



not modelled 77.3 18 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.
85d1utxa_



not modelled 77.0 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
86d2d1ha1



not modelled 76.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
87d1mkma1



not modelled 76.6 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
88d1b0na2



not modelled 75.5 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
89c3cuoB_



not modelled 75.5 11 PDB header:transcription regulator
Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav;
PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli
90d1adra_



not modelled 74.9 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
91d1xsva_



not modelled 74.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
92c2ebyA_



not modelled 74.6 13 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq;
PDBTitle: crystal structure of a hypothetical protein from e. coli
93d2ao9a1



not modelled 74.5 47 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Nanomeric phage protein-like
94d1vega_



not modelled 73.9 17 Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
95c2w48D_



not modelled 73.9 33 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
96d1y7ya1



not modelled 73.6 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
97d1i3ja_



not modelled 73.3 24 Fold:DNA-binding domain of intron-encoded endonucleases
Superfamily:DNA-binding domain of intron-encoded endonucleases
Family:DNA-binding domain of intron-encoded endonucleases
98c2gloA_



not modelled 73.2 33 PDB header:transcription/dna
Chain: A: PDB Molecule:brinker cg9653-pa;
PDBTitle: solution structure of the brinker dna binding domain in2 complex with the omb enhancer
99c3trbA_



not modelled 73.0 12 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
100d1a04a1



not modelled 72.9 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
101c2oqgA_



not modelled 72.8 11 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
102d1k78a1



not modelled 72.7 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
103d1biaa1



not modelled 72.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
104c2elhA_



not modelled 72.6 17 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
105c2jmlA_



not modelled 72.6 38 PDB header:transcription
Chain: A: PDB Molecule:dna binding domain/transcriptional regulator;
PDBTitle: solution structure of the n-terminal domain of cara repressor
106d2p4wa1



not modelled 72.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
107c1j5yA_



not modelled 72.3 5 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
108c2kpjA_



not modelled 72.2 16 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
109d1rp3a2



not modelled 72.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
110d1x57a1



not modelled 71.8 10 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:EDF1-like
111c3r0aB_



not modelled 71.8 10 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
112c3bs3A_



not modelled 71.7 14 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
113d1bw6a_



not modelled 71.5 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
114d1r1ta_



not modelled 70.8 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
115d1llib_



not modelled 70.8 10 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
116d1s7oa_



not modelled 70.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
117d6paxa1



not modelled 70.4 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
118c3f6wE_



not modelled 70.2 20 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
119c2wteB_



not modelled 69.8 27 PDB header:antiviral protein
Chain: B: PDB Molecule:csa3;
PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution.
120d2croa_



not modelled 69.6 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors

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