Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP52133
DateThu Jan 5 12:05:38 GMT 2012
Unique Job IDdd655207642ded7a

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1j5ya1
Top template information
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
Confidence and coverage
Confidence: 98.7% Coverage: 24%
56 residues ( 24% of your sequence) have been modelled with 98.7% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
108 residues ( 46%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MTQAERRHDRLAVRLSLIISRLVAGETLSVRKLAAEFGVSVRTLRRDFRERLMYLDLEYQ
Secondary structure 


















SS confidence 



























































Disorder  ????????














??????






























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
















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Disorder 







????????









?


?
















?







???
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   .........130.........140.........150.........160.........170.........180
Sequence  SPSGALSFWRLIQAITGRRRVTLIAEGRRCERLAPCRLLIHQQTWYLVAEHEGHIAVFTL
Secondary structure 











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Disorder 


??






















































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   .........190.........200.........210.........220.........230...
Sequence  DEIHLIQPLQETFRRNDSLCRLVEDPVFIQALPHFRFIQHSLLTFVPADSPPE
Secondary structure 





















SS confidence 




















































Disorder 







????
?










??

















????????
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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 1j5y chain A domain 1

3D model

Region: 14 - 69
Aligned: 56
Modelled: 56
Confidence: 98.7%
Identity: 25%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Biotin repressor-like

Phyre2

PDB 1bia chain A domain 1

3D model

Region: 14 - 69
Aligned: 56
Modelled: 56
Confidence: 98.6%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Biotin repressor-like

Phyre2

PDB 1j5y chain A

3D model

Region: 14 - 69
Aligned: 56
Modelled: 56
Confidence: 98.4%
Identity: 21%
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

Phyre2

PDB 1aoy chain A

3D model

Region: 1 - 73
Aligned: 69
Modelled: 73
Confidence: 96.5%
Identity: 10%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Arginine repressor (ArgR), N-terminal DNA-binding domain

Phyre2

PDB 1stz chain A domain 1

3D model

Region: 14 - 63
Aligned: 50
Modelled: 50
Confidence: 96.3%
Identity: 12%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Heat-inducible transcription repressor HrcA, N-terminal domain

Phyre2

PDB 2ewn chain A

3D model

Region: 16 - 69
Aligned: 54
Modelled: 54
Confidence: 96.3%
Identity: 22%
PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog

Phyre2

PDB 1mkm chain A domain 1

3D model

Region: 12 - 67
Aligned: 56
Modelled: 56
Confidence: 95.9%
Identity: 14%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Transcriptional regulator IclR, N-terminal domain

Phyre2

PDB 3by6 chain C

3D model

Region: 1 - 68
Aligned: 68
Modelled: 68
Confidence: 95.9%
Identity: 19%
PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni

Phyre2

PDB 2l4a chain A

3D model

Region: 1 - 59
Aligned: 59
Modelled: 59
Confidence: 95.8%
Identity: 17%
PDB header:dna binding protein
Chain: A: PDB Molecule:leucine responsive regulatory protein;
PDBTitle: nmr structure of the dna-binding domain of e.coli lrp

Phyre2

PDB 1b4a chain A domain 1

3D model

Region: 12 - 65
Aligned: 54
Modelled: 54
Confidence: 95.8%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Arginine repressor (ArgR), N-terminal DNA-binding domain

Phyre2

PDB 1b4a chain A

3D model

Region: 12 - 65
Aligned: 54
Modelled: 54
Confidence: 95.7%
Identity: 19%
PDB header:repressor
Chain: A: PDB Molecule:arginine repressor;
PDBTitle: structure of the arginine repressor from bacillus stearothermophilus

Phyre2

PDB 2p5k chain A domain 1

3D model

Region: 12 - 65
Aligned: 54
Modelled: 54
Confidence: 95.5%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Arginine repressor (ArgR), N-terminal DNA-binding domain

Phyre2

PDB 3eet chain A

3D model

Region: 7 - 77
Aligned: 71
Modelled: 71
Confidence: 95.4%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator

Phyre2

PDB 3ere chain D

3D model

Region: 12 - 92
Aligned: 81
Modelled: 81
Confidence: 95.4%
Identity: 21%
PDB header:dna binding protein/dna
Chain: D: PDB Molecule:arginine repressor;
PDBTitle: crystal structure of the arginine repressor protein from mycobacterium2 tuberculosis in complex with the dna operator

Phyre2

PDB 2cg4 chain A domain 1

3D model

Region: 16 - 51
Aligned: 36
Modelled: 36
Confidence: 95.4%
Identity: 25%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2y75 chain F

3D model

Region: 6 - 69
Aligned: 64
Modelled: 64
Confidence: 95.3%
Identity: 11%
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

Phyre2

PDB 2g7u chain B

3D model

Region: 10 - 67
Aligned: 58
Modelled: 58
Confidence: 95.2%
Identity: 17%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1

Phyre2

PDB 3lmm chain A

3D model

Region: 5 - 68
Aligned: 64
Modelled: 64
Confidence: 95.1%
Identity: 11%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35

Phyre2

PDB 1mkm chain A

3D model

Region: 12 - 67
Aligned: 56
Modelled: 56
Confidence: 95.1%
Identity: 14%
PDB header:transcription
Chain: A: PDB Molecule:iclr transcriptional regulator;
PDBTitle: crystal structure of the thermotoga maritima iclr

Phyre2

PDB 2hs5 chain A domain 1

3D model

Region: 6 - 70
Aligned: 65
Modelled: 65
Confidence: 95.0%
Identity: 25%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: GntR-like transcriptional regulators

Phyre2

PDB 3c7j chain A

3D model

Region: 2 - 108
Aligned: 107
Modelled: 106
Confidence: 94.6%
Identity: 22%
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
1

d1j5ya1
2

d1biaa1
3

c1j5yA_
4

d1aoya_
5

d1stza1
6

c2ewnA_
7

d1mkma1
8

c3by6C_
9

c2l4aA_
10

d1b4aa1
11

c1b4aA_
12

d2p5ka1
13

c3eetA_
14

c3ereD_
15

d2cg4a1
16

c2y75F_
17

c2g7uB_
18

c3lmmA_
19

c1mkmA_
20

d2hs5a1
21



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c3c7jA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1j5ya1



98.7 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
2d1biaa1



98.6 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
3c1j5yA_



98.4 21 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
4d1aoya_



96.5 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
5d1stza1



96.3 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
6c2ewnA_



96.3 22 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
7d1mkma1



95.9 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
8c3by6C_



95.9 19 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
9c2l4aA_



95.8 17 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
10d1b4aa1



95.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
11c1b4aA_



95.7 19 PDB header:repressor
Chain: A: PDB Molecule:arginine repressor;
PDBTitle: structure of the arginine repressor from bacillus stearothermophilus
12d2p5ka1



95.5 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
13c3eetA_



95.4 20 PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator
14c3ereD_



95.4 21 PDB header:dna binding protein/dna
Chain: D: PDB Molecule:arginine repressor;
PDBTitle: crystal structure of the arginine repressor protein from mycobacterium2 tuberculosis in complex with the dna operator
15d2cg4a1



95.4 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
16c2y75F_



95.3 11 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
17c2g7uB_



95.2 17 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1
18c3lmmA_



95.1 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35
19c1mkmA_



95.1 14 PDB header:transcription
Chain: A: PDB Molecule:iclr transcriptional regulator;
PDBTitle: crystal structure of the thermotoga maritima iclr
20d2hs5a1



95.0 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
21c2h09A_



not modelled 94.9 20 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
22c2vbzA_



not modelled 94.9 22 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
23d1i1ga1



not modelled 94.8 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
24c1f5tA_



not modelled 94.7 15 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
25c2x4hA_



not modelled 94.7 9 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
26c3lwfD_



not modelled 94.7 14 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
27c3c7jA_



94.6 22 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
28c2xroE_



not modelled 94.6 22 PDB header:dna-binding protein/dna
Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv;
PDBTitle: crystal structure of ttgv in complex with its dna operator
29c1hlvA_



not modelled 94.6 23 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
30d1f9na1



not modelled 94.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
31d1u2wa1



not modelled 94.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
32d2cyya1



not modelled 94.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
33c3neuA_



not modelled 94.4 13 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
34d2cfxa1



not modelled 94.3 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
35c2oqgA_



not modelled 94.2 15 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
36d2d1ha1



not modelled 94.2 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
37c2it0A_



not modelled 94.1 17 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
38c3f8mA_



not modelled 94.1 24 PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis
39c3cuoB_



not modelled 94.0 15 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
40d2dt5a1



not modelled 93.9 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional repressor Rex, N-terminal domain
41d1v4ra1



not modelled 93.9 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
42d3bwga1



not modelled 93.9 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
43c2cg4B_



not modelled 93.9 25 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
44c2e1cA_



not modelled 93.8 18 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
45c3i4pA_



not modelled 93.8 23 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
46c2e7xA_



not modelled 93.7 19 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
47d1z05a1



not modelled 93.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
48c2ia0A_



not modelled 93.7 14 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)
49c2di3A_



not modelled 93.7 20 PDB header:transcription
Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family;
PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum
50c2du9A_



not modelled 93.7 15 PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum
51c3v4gA_



not modelled 93.6 8 PDB header:dna binding protein
Chain: A: PDB Molecule:arginine repressor;
PDBTitle: 1.60 angstrom resolution crystal structure of an arginine repressor2 from vibrio vulnificus cmcp6
52c2jscB_



not modelled 93.6 17 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
53c2hs5A_



not modelled 93.5 26 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
54d1hw1a1



not modelled 93.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
55c3bwgA_



not modelled 93.5 18 PDB header:transcription regulator
Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk;
PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168
56c1i1gA_



not modelled 93.3 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
57c2p6tH_



not modelled 93.2 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
58c2cfxD_



not modelled 93.0 25 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
59d1r1ua_



not modelled 93.0 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
60c3ihuA_



not modelled 92.9 17 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
61d1o57a1



not modelled 92.9 7 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:N-terminal domain of Bacillus PurR
62c1bl0A_



not modelled 92.9 25 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
63c2zkzC_



not modelled 92.8 11 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
64c1r22B_



not modelled 92.6 27 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
65c3r4kD_



not modelled 92.6 14 PDB header:dna binding protein
Chain: D: PDB Molecule:transcriptional regulator, iclr family;
PDBTitle: crystal structure of a putative iclr transcriptional regulator2 (tm1040_3717) from silicibacter sp. tm1040 at 2.46 a resolution
66c2dbbA_



not modelled 92.6 17 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
67c3edpB_



not modelled 92.5 16 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
68c2dt5A_



not modelled 92.4 21 PDB header:dna binding protein
Chain: A: PDB Molecule:at-rich dna-binding protein;
PDBTitle: crystal structure of ttha1657 (at-rich dna-binding protein) from2 thermus thermophilus hb8
69c2o0yB_



not modelled 92.3 16 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp.
70c3k69A_



not modelled 92.3 19 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
71d1r1ta_



not modelled 92.3 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
72c1g3wA_



not modelled 92.3 15 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
73d1g3wa1



not modelled 92.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
74c1zgwA_



not modelled 92.1 14 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
75c3ketA_



not modelled 92.1 27 PDB header:transcription/dna
Chain: A: PDB Molecule:redox-sensing transcriptional repressor rex;
PDBTitle: crystal structure of a rex-family transcriptional regulatory protein2 from streptococcus agalactiae bound to a palindromic operator
76d1xd7a_



not modelled 92.1 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
77d1j9ia_



not modelled 92.1 25 Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:Terminase gpNU1 subunit domain
78c3f6oB_



not modelled 91.9 15 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
79d2p4wa1



not modelled 91.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
80c2l0kA_



not modelled 91.7 41 PDB header:transcription
Chain: A: PDB Molecule:stage iii sporulation protein d;
PDBTitle: nmr solution structure of a transcription factor spoiiid in complex2 with dna
81c2wteB_



not modelled 91.7 17 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.
82d2ev0a1



not modelled 91.6 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
83c3h5tA_



not modelled 91.5 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
84c2k9sA_



not modelled 91.5 19 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
85c3eqxB_



not modelled 91.5 5 PDB header:dna binding protein
Chain: B: PDB Molecule:fic domain containing transcriptional regulator;
PDBTitle: crystal structure of a fic family protein (so_4266) from shewanella2 oneidensis at 1.6 a resolution
86d2isya1



not modelled 91.4 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
87d1y0ua_



not modelled 91.3 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
88c3pqkD_



not modelled 91.2 24 PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
89c3fmsA_



not modelled 91.0 20 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator
90d1a04a1



not modelled 90.8 22 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)
91c1fx7C_



not modelled 90.6 17 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
92d1hlva1



not modelled 90.5 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
93c2kpjA_



not modelled 90.5 20 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
94c3oioA_



not modelled 90.2 38 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
95c3mq0A_



not modelled 90.2 12 PDB header:transcription repressor
Chain: A: PDB Molecule:transcriptional repressor of the blcabc operon;
PDBTitle: crystal structure of agobacterium tumefaciens repressor blcr
96c2vt2A_



not modelled 90.1 33 PDB header:transcription
Chain: A: PDB Molecule:redox-sensing transcriptional repressor rex;
PDBTitle: structure and functional properties of the bacillus2 subtilis transcriptional repressor rex
97c1e2xA_



not modelled 90.1 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
98c3jthA_



not modelled 90.0 27 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
99c2gqqB_



not modelled 89.9 19 PDB header:transcription
Chain: B: PDB Molecule:leucine-responsive regulatory protein;
PDBTitle: crystal structure of e. coli leucine-responsive regulatory protein2 (lrp)
100c1y9qA_



not modelled 89.9 22 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
101c3f6vA_



not modelled 89.8 22 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
102d1rioa_



not modelled 89.7 23 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
103c2ev5B_



not modelled 89.6 11 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator mntr;
PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
104c3oouA_



not modelled 89.5 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
105d1z6ra1



not modelled 89.4 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
106d2ofya1



not modelled 89.2 29 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
107c3cjnA_



not modelled 89.1 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
108d1lmb3_



not modelled 88.9 23 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
109d1bl0a1



not modelled 88.9 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
110c2ppxA_



not modelled 88.9 21 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
111d2ppxa1



not modelled 88.9 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
112c1z6rC_



not modelled 88.9 11 PDB header:transcription
Chain: C: PDB Molecule:mlc protein;
PDBTitle: crystal structure of mlc from escherichia coli
113d1llib_



not modelled 88.8 26 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
114c3kjxD_



not modelled 88.8 32 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
115d1ylfa1



not modelled 88.7 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
116c2ef8A_



not modelled 88.7 26 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcription factor;
PDBTitle: crystal structure of c.ecot38is
117c3mn2B_



not modelled 88.7 21 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
118c3fmyA_



not modelled 88.6 21 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)
119c1z05A_



not modelled 88.5 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, rok family;
PDBTitle: crystal structure of the rok family transcriptional regulator, homolog2 of e.coli mlc protein.
120c2w48D_



not modelled 88.4 24 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae

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