Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP64624
DateThu Jan 5 12:10:00 GMT 2012
Unique Job IDd8e0b51eb086af0d

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: 96.6% Coverage: 20%
48 residues ( 20% of your sequence) have been modelled with 96.6% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
195 residues ( 81%) 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  MSRSLLTNETSELDLLDQRPFDQTDFDILKSYEAVVDGLAMLIGSHCEIVLHSLQDLKCS
Secondary structure 
SS confidence 
Disorder  ??????????
??
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  AIRIANGEHTGRKIGSPITDLALRMLHDMTGADSSVSKCYFTRAKSGVLMKSLTIAIRNR
Secondary structure 
SS confidence 
Disorder 
?
?
??
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  EQRVIGLLCINMNLDVPFSQIMSTFVPPETPDVGSSVNFASSVEDLVTQTLEFTIEEVNA
Secondary structure 
SS confidence 
Disorder 
??????????????
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  DRNVSNNAKNRQIVLNLYEKGIFDIKDAINQVADRLNISKHTVYLYIRQFKSGDFQGQDK
Secondary structure 
SS confidence 
Disorder  ?
??
?????????
Disorder confidence 
 
  
Sequence 
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 1j5y chain A domain 1

3D model

Region: 183 - 233
Aligned: 48
Modelled: 51
Confidence: 96.6%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Biotin repressor-like

Phyre2

PDB 1etx chain A

3D model

Region: 160 - 229
Aligned: 65
Modelled: 70
Confidence: 96.4%
Identity: 14%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1u78 chain A

3D model

Region: 185 - 234
Aligned: 44
Modelled: 50
Confidence: 96.1%
Identity: 11%
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 1bia chain A domain 1

3D model

Region: 188 - 233
Aligned: 42
Modelled: 46
Confidence: 96.1%
Identity: 12%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Biotin repressor-like

Phyre2

PDB 1fip chain A

3D model

Region: 162 - 229
Aligned: 63
Modelled: 68
Confidence: 96.1%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 3clo chain C

3D model

Region: 28 - 233
Aligned: 173
Modelled: 190
Confidence: 95.7%
Identity: 18%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution

Phyre2

PDB 1umq chain A

3D model

Region: 187 - 229
Aligned: 38
Modelled: 38
Confidence: 95.3%
Identity: 18%
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 1umq chain A

3D model

Region: 187 - 229
Aligned: 38
Modelled: 38
Confidence: 95.3%
Identity: 18%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 2r0q chain F

3D model

Region: 188 - 229
Aligned: 40
Modelled: 42
Confidence: 95.1%
Identity: 28%
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

PDB 1pdn chain C

3D model

Region: 179 - 233
Aligned: 46
Modelled: 55
Confidence: 94.9%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Paired domain

Phyre2

PDB 1r1u chain A

3D model

Region: 172 - 233
Aligned: 57
Modelled: 62
Confidence: 94.6%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ArsR-like transcriptional regulators

Phyre2

PDB 2oqg chain A

3D model

Region: 183 - 233
Aligned: 46
Modelled: 51
Confidence: 94.6%
Identity: 13%
PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1

Phyre2

PDB 2cg4 chain A domain 1

3D model

Region: 185 - 233
Aligned: 45
Modelled: 49
Confidence: 94.5%
Identity: 18%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 3nja chain C

3D model

Region: 80 - 135
Aligned: 56
Modelled: 54
Confidence: 94.5%
Identity: 14%
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:probable ggdef family protein;
PDBTitle: the crystal structure of the pas domain of a ggdef family protein from2 chromobacterium violaceum atcc 12472.

Phyre2

PDB 1eto chain B

3D model

Region: 160 - 229
Aligned: 70
Modelled: 70
Confidence: 94.4%
Identity: 14%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1byw chain A

3D model

Region: 48 - 135
Aligned: 88
Modelled: 88
Confidence: 94.3%
Identity: 13%
Fold: Profilin-like
Superfamily: PYP-like sensor domain (PAS domain)
Family: Flavin-binding PAS domain

Phyre2

PDB 2gm4 chain B

3D model

Region: 194 - 229
Aligned: 31
Modelled: 36
Confidence: 94.2%
Identity: 32%
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

Phyre2

PDB 3cuo chain B

3D model

Region: 183 - 233
Aligned: 46
Modelled: 51
Confidence: 94.2%
Identity: 9%
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

Phyre2

PDB 3e7l chain D

3D model

Region: 183 - 229
Aligned: 42
Modelled: 47
Confidence: 94.1%
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 2vbz chain A

3D model

Region: 191 - 233
Aligned: 39
Modelled: 43
Confidence: 94.1%
Identity: 26%
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

Phyre2

PDB 3cax chain A

3D model

Region: 105 - 135
Aligned: 31
Modelled: 31
Confidence: 93.2%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pf0695;
PDBTitle: crystal structure of uncharacterized protein pf0695

Phyre2

PDB 3icy chain B

3D model

Region: 80 - 135
Aligned: 56
Modelled: 53
Confidence: 93.0%
Identity: 13%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:sensor protein;
PDBTitle: the crystal structure of sensory box histidine2 kinase/response regulator domain from chlorobium tepidum3 tls

Phyre2

PDB 3h9w chain A

3D model

Region: 80 - 135
Aligned: 56
Modelled: 55
Confidence: 92.6%
Identity: 9%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:diguanylate cyclase with pas/pac sensor;
PDBTitle: crystal structure of the n-terminal domain of diguanylate cyclase with2 pas/pac sensor (maqu_2914) from marinobacter aquaeolei, northeast3 structural genomics consortium target mqr66c

Phyre2

PDB 2z6d chain B

3D model

Region: 49 - 135
Aligned: 87
Modelled: 87
Confidence: 92.2%
Identity: 11%
PDB header:transferase
Chain: B: PDB Molecule:phototropin-2;
PDBTitle: crystal structure of lov1 domain of phototropin2 from2 arabidopsis thaliana

Phyre2
1
d1j5ya1
2
d1etxa_
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c1u78A_
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d1biaa1
5
d1fipa_
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c3cloC_
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c1umqA_
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d1umqa_
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c2r0qF_
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d1pdnc_
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d1r1ua_
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c2oqgA_
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d2cg4a1
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c3njaC_
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d1etob_
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d1bywa_
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c2gm4B_
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c3cuoB_
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c3e7lD_
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c2vbzA_
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c3caxA_
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c3icyB_
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c3h9wA_
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c2z6dB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1j5ya1
96.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
2d1etxa_
96.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
3c1u78A_
96.1 11 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
4d1biaa1
96.1 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
5d1fipa_
96.1 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
6c3cloC_
95.7 18 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution
7c1umqA_
95.3 18 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
8d1umqa_
95.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
9c2r0qF_
95.1 28 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
10d1pdnc_
94.9 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
11d1r1ua_
94.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
12c2oqgA_
94.6 13 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
13d2cg4a1
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
14c3njaC_
94.5 14 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:probable ggdef family protein;
PDBTitle: the crystal structure of the pas domain of a ggdef family protein from2 chromobacterium violaceum atcc 12472.
15d1etob_
94.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
16d1bywa_
94.3 13 Fold:Profilin-like
Superfamily:PYP-like sensor domain (PAS domain)
Family:Flavin-binding PAS domain
17c2gm4B_
94.2 32 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
18c3cuoB_
94.2 9 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
19c3e7lD_
94.1 19 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain
20c2vbzA_
94.1 26 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
21d2jn6a1
not modelled 94.1 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Cgl2762-like
22d1i1ga1
not modelled 94.1 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
23c2p6tH_
not modelled 94.0 18 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
24d1r1ta_
not modelled 94.0 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
25d1g2ha_
not modelled 93.9 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
26d1ntca_
not modelled 93.8 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
27d2d1ha1
not modelled 93.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
28c2l4aA_
not modelled 93.8 15 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
29c2kkoB_
not modelled 93.7 19 PDB header:dna binding protein
Chain: B: PDB Molecule:possible transcriptional regulatory protein
PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e.
30c6paxA_
not modelled 93.7 16 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
31c1r22B_
not modelled 93.6 13 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
32c3jthA_
not modelled 93.4 13 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
33d1a04a1
not modelled 93.3 24 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)
34c3caxA_
93.2 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pf0695;
PDBTitle: crystal structure of uncharacterized protein pf0695
35c2elhA_
not modelled 93.1 9 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
36c3icyB_
93.0 13 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:sensor protein;
PDBTitle: the crystal structure of sensory box histidine2 kinase/response regulator domain from chlorobium tepidum3 tls
37c2e1cA_
not modelled 92.9 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
38d2p4wa1
not modelled 92.8 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
39d2cfxa1
not modelled 92.8 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
40c3f6vA_
not modelled 92.7 17 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
41c2qwtA_
not modelled 92.6 14 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of the tetr transcription regulatory2 protein from mycobacterium vanbaalenii
42c3pqkD_
not modelled 92.6 15 PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
43c3iwfA_
not modelled 92.6 7 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator rpir family;
PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
44c3h9wA_
92.6 9 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:diguanylate cyclase with pas/pac sensor;
PDBTitle: crystal structure of the n-terminal domain of diguanylate cyclase with2 pas/pac sensor (maqu_2914) from marinobacter aquaeolei, northeast3 structural genomics consortium target mqr66c
45c1i1gA_
not modelled 92.4 18 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
46c2z6dB_
92.2 11 PDB header:transferase
Chain: B: PDB Molecule:phototropin-2;
PDBTitle: crystal structure of lov1 domain of phototropin2 from2 arabidopsis thaliana
47c2nx4A_
not modelled 91.9 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:transcriptional regulator, tetr family protein;
PDBTitle: the crystal structure of athe putative tetr-family transcriptional2 regulator rha06780 from rhodococcus sp. rha1.
48c2qkpD_
not modelled 91.9 13 PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of c-terminal domain of smu_1151c from streptococcus2 mutans
49c2wgbB_
not modelled 91.9 23 PDB header:transcription
Chain: B: PDB Molecule:tetr family transcriptional repressor lfrr;
PDBTitle: crystal structure of the tetr-like transcriptional2 regulator lfrr from mycobacterium smegmatis
50c2ia0A_
not modelled 91.9 18 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)
51c2e7xA_
not modelled 91.9 21 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
52c2pbxB_
not modelled 91.8 22 PDB header:transcription
Chain: B: PDB Molecule:hemagglutinin/protease regulatory protein;
PDBTitle: vibrio cholerae hapr
53d2cyya1
not modelled 91.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
54c3bjbE_
not modelled 91.7 24 PDB header:transcription regulator
Chain: E: PDB Molecule:probable transcriptional regulator, tetr family protein;
PDBTitle: crystal structure of a tetr transcriptional regulator from rhodococcus2 sp. rha1
55d1n9la_
not modelled 91.6 12 Fold:Profilin-like
Superfamily:PYP-like sensor domain (PAS domain)
Family:Flavin-binding PAS domain
56c3o60A_
not modelled 91.5 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin0861 protein;
PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a
57c2jscB_
not modelled 91.5 13 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
58c3f6oB_
not modelled 91.5 9 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
59c1r71B_
not modelled 91.4 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
60c3e7qB_
not modelled 91.3 7 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: the crystal structure of the putative transcriptional regulator from2 pseudomonas aeruginosa pao1
61d1p97a_
not modelled 91.3 21 Fold:Profilin-like
Superfamily:PYP-like sensor domain (PAS domain)
Family:Hypoxia-inducible factor Hif2a, C-terminal domain
62d2g7ga1
not modelled 91.3 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
63c2rekA_
not modelled 91.1 16 PDB header:transcription
Chain: A: PDB Molecule:putative tetr-family transcriptional regulator;
PDBTitle: crystal structure of tetr-family transcriptional regulator
64c3luqC_
not modelled 91.0 10 PDB header:transferase
Chain: C: PDB Molecule:sensor protein;
PDBTitle: the crystal structure of a pas domain from a sensory box2 histidine kinase regulator from geobacter sulfurreducens to3 2.5a
65d1mzba_
not modelled 90.9 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FUR-like
66d1r71a_
not modelled 90.8 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
67d1vz0a1
not modelled 90.7 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
68c3gziA_
not modelled 90.7 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of a transcriptional regulator of the tetr family2 (shew_3567) from shewanella loihica pv-4 at 2.05 a resolution
69c1hlvA_
not modelled 90.6 17 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
70c2cg4B_
not modelled 90.6 18 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
71c2kdkA_
not modelled 90.6 18 PDB header:transcription regulator
Chain: A: PDB Molecule:aryl hydrocarbon receptor nuclear translocator-like protein
PDBTitle: structure of human circadian clock protein bmal2 c-terminal pas domain
72c2raeA_
not modelled 90.4 21 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, acrr family protein;
PDBTitle: crystal structure of a tetr/acrr family transcriptional regulator from2 rhodococcus sp. rha1
73c2cfxD_
not modelled 90.4 18 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
74c2pdtD_
not modelled 90.2 10 PDB header:circadian clock protein
Chain: D: PDB Molecule:vivid pas protein vvd;
PDBTitle: 2.3 angstrom structure of phosphodiesterase treated vivid
75c1rnlA_
not modelled 90.0 23 PDB header:signal transduction protein
Chain: A: PDB Molecule:nitrate/nitrite response regulator protein narl;
PDBTitle: the nitrate/nitrite response regulator protein narl from narl
76c2dbbA_
not modelled 89.8 24 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
77d2ezla_
not modelled 89.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Recombinase DNA-binding domain
78d1t33a1
not modelled 89.5 7 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
79c1h0mD_
not modelled 89.4 15 PDB header:transcription/dna
Chain: D: PDB Molecule:transcriptional activator protein trar;
PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna
80d2hkua1
not modelled 89.4 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
81c3eqxB_
not modelled 89.4 13 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
82c3i4pA_
not modelled 89.3 21 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
83c3c3wB_
not modelled 89.0 25 PDB header:transcription
Chain: B: PDB Molecule:two component transcriptional regulatory protein devr;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr
84c2o7tA_
not modelled 88.7 12 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of a tetr family transcriptional regulator2 (ncgl1578, cgl1640) from corynebacterium glutamicum at 2.10 a3 resolution
85d1ulya_
not modelled 88.7 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Hypothetical protein PH1932
86c2rn7A_
not modelled 88.6 17 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
87c2zkzC_
not modelled 88.6 20 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
88c2fe3B_
not modelled 88.6 21 PDB header:dna binding protein
Chain: B: PDB Molecule:peroxide operon regulator;
PDBTitle: the crystal structure of bacillus subtilis perr-zn reveals a novel2 zn(cys)4 structural redox switch
89c2l4rA_
not modelled 88.3 13 PDB header:transport protein
Chain: A: PDB Molecule:potassium voltage-gated channel subfamily h member 2;
PDBTitle: nmr solution structure of the n-terminal pas domain of herg
90d1jnua_
not modelled 88.2 13 Fold:Profilin-like
Superfamily:PYP-like sensor domain (PAS domain)
Family:Flavin-binding PAS domain
91c3qp5C_
not modelled 88.2 23 PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
92d2vkea1
not modelled 88.2 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
93c2of7A_
not modelled 88.2 24 PDB header:transcription
Chain: A: PDB Molecule:putative tetr-family transcriptional regulator;
PDBTitle: structural genomics, the crystal structure of a tetr-family2 transcriptional regulator from streptomyces coelicolor a3
94d2isya1
not modelled 87.9 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
95d1k78a1
not modelled 87.9 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
96d1v7ba1
not modelled 87.7 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
97c2x48B_
not modelled 87.6 22 PDB header:viral protein
Chain: B: PDB Molecule:cag38821;
PDBTitle: orf 55 from sulfolobus islandicus rudivirus 1
98d2vkva1
not modelled 87.5 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
99c3lyxA_
not modelled 87.5 14 PDB header:transcription
Chain: A: PDB Molecule:sensory box/ggdef domain protein;
PDBTitle: crystal structure of the pas domain of the protein cps_12912 from colwellia psychrerythraea. northeast structural3 genomics consortium target id csr222b
100c3ljlB_
not modelled 87.5 5 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator luxt;
PDBTitle: the crystal structure of the full-length transcriptional regulator2 luxt from vibrio parahaemolyticus rimd 2210633.
101c3mvpA_
not modelled 87.5 24 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr/acrr transcriptional regulator;
PDBTitle: the crystal structure of a tetr/acrr transcriptional regulator from2 streptococcus mutans to 1.85a
102c3eyyA_
not modelled 87.4 13 PDB header:transport
Chain: A: PDB Molecule:putative iron uptake regulatory protein;
PDBTitle: structural basis for the specialization of nur, a nickel-2 specific fur homologue, in metal sensing and dna3 recognition
103d2o7ta1
not modelled 87.4 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
104c2iu5A_
not modelled 87.3 15 PDB header:transcription
Chain: A: PDB Molecule:hth-type dhaklm operon transcriptional activator dhas;
PDBTitle: dihydroxyacetone kinase operon activator dhas
105d2esna1
not modelled 87.3 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LysR-like transcriptional regulators
106d1mkma1
not modelled 87.2 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
107c3sztB_
not modelled 87.2 12 PDB header:transcription
Chain: B: PDB Molecule:quorum-sensing control repressor;
PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone
108d2id6a1
not modelled 87.0 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
109c2q0oA_
not modelled 87.0 19 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
110d1u2wa1
not modelled 86.8 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
111d1t56a1
not modelled 86.7 32 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
112c2fu4B_
not modelled 86.6 18 PDB header:dna binding protein
Chain: B: PDB Molecule:ferric uptake regulation protein;
PDBTitle: crystal structure of the dna binding domain of e.coli fur (ferric2 uptake regulator)
113d2gena1
not modelled 86.6 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
114d2i10a1
not modelled 86.6 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
115c3eehA_
not modelled 86.6 7 PDB header:transferase
Chain: A: PDB Molecule:putative light and redox sensing histidine kinase;
PDBTitle: the crystal structure of the domain of the putative light and redox2 sensing histidine kinase from haloarcula marismortui
116d1g3wa1
not modelled 86.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
117d2iu5a1
not modelled 86.3 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
118c3pasA_
not modelled 86.3 26 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr family transcription regulator;
PDBTitle: crystal structure of a tetr family transcription regulator (maqu_1417)2 from marinobacter aquaeolei vt8 at 1.90 a resolution
119d1rzsa_
not modelled 86.2 32 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
120d1ui5a1
not modelled 86.2 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal 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