Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP32152
DateThu Jan 5 11:49:32 GMT 2012
Unique Job ID846184ab4763fd77

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3sqnB_
Top template information
PDB header:transcription regulator
Chain: B: PDB Molecule:conserved domain protein;
PDBTitle: putative mga family transcriptional regulator from enterococcus2 faecalis
Confidence and coverage
Confidence:100.0% Coverage: 61%
355 residues ( 61% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
565 residues ( 97%) 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  MLNERQLKIVDLLEQQPRTPGELAQQTGVSGRTILRDIDYLNFTLNGKARIFASGSAGYQ
Secondary structure 















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Disorder  ???










?????



























??



???



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   .........70.........80.........90.........100.........110.........120
Sequence  LEIFERRSFFQLLQKHDNDDRLLALLLLNTFTPRAQLASALNLPETWVAERLPRLKQRYE
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?????









































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   .........130.........140.........150.........160.........170.........180
Sequence  RTCCLASRPGLGHFIDETEEKRVILLANLLRKDPFLIPLAGITRDNLQHLSTACDNQHRW
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   .........190.........200.........210.........220.........230.........240
Sequence  PLMQGDYLSSLILAIYALRNQLTDEWPQYPGDEIKQIVEHSGLFLGDNAVRTLTGLIEKQ
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Disorder 


?





















































??
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   .........250.........260.........270.........280.........290.........300
Sequence  HQQAQVISADNVQGLLQRVPGIASLNIIDAQLVENITGHLLRCLAAPVWIAEHRQSSMNN
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?










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   .........310.........320.........330.........340.........350.........360
Sequence  LKAAWPAAFDMSLHFITLLREQLDIPLFDSDLIGLYFACALERHQNERQPIILLSDQNAI
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????













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   .........370.........380.........390.........400.........410.........420
Sequence  ATINQLAIERDVLNCRVIIARSLSELVAIREEIEPLLIINNSHYLLDDAVNNYITVKNII
Secondary structure 





















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Disorder 









?






























?????

?





????
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   .........430.........440.........450.........460.........470.........480
Sequence  TAAGIEQIKHFLATAFIRQQPERFFSAPGSFHYSNVRGESWQHITRQICAQLVAQHHITA
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Disorder  ?
?




















































??

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   .........490.........500.........510.........520.........530.........540
Sequence  DEAQRIIAREGEGENLIVNRLAIPHCWSEQERRFRGFFITLAQPVEVNNEVINHVLIACA
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??












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   .........550.........560.........570.........580..
Sequence  AADARHELKIFSYLASILCQHPAEIIAGLTGYEAFMELLHKG
Secondary structure 








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???
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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 3sqn chain B

3D model

Region: 74 - 436
Aligned: 355
Modelled: 363
Confidence: 100.0%
Identity: 10%
PDB header:transcription regulator
Chain: B: PDB Molecule:conserved domain protein;
PDBTitle: putative mga family transcriptional regulator from enterococcus2 faecalis

Phyre2

PDB 3bjv chain A

3D model

Region: 445 - 582
Aligned: 138
Modelled: 138
Confidence: 99.9%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:rmpa;
PDBTitle: the crystal structure of a putative pts iia(ptxa) from streptococcus2 mutans

Phyre2

PDB 2oq3 chain A

3D model

Region: 443 - 582
Aligned: 139
Modelled: 140
Confidence: 99.9%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:mannitol-specific cryptic phosphotransferase
PDBTitle: solution structure of the mannitol- specific cryptic2 phosphotransferase enzyme iia cmtb from escherichia coli

Phyre2

PDB 2oqt chain D

3D model

Region: 446 - 581
Aligned: 136
Modelled: 136
Confidence: 99.9%
Identity: 16%
PDB header:transferase
Chain: D: PDB Molecule:hypothetical protein spy0176;
PDBTitle: structural genomics, the crystal structure of a putative2 pts iia domain from streptococcus pyogenes m1 gas

Phyre2

PDB 3oxp chain B

3D model

Region: 442 - 581
Aligned: 139
Modelled: 139
Confidence: 99.9%
Identity: 12%
PDB header:transferase
Chain: B: PDB Molecule:phosphotransferase enzyme ii, a component;
PDBTitle: structure of phosphotransferase enzyme ii, a component from yersinia2 pestis co92 at 1.2 a resolution

Phyre2

PDB 3oxp chain A

3D model

Region: 442 - 581
Aligned: 139
Modelled: 139
Confidence: 99.9%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:phosphotransferase enzyme ii, a component;
PDBTitle: structure of phosphotransferase enzyme ii, a component from yersinia2 pestis co92 at 1.2 a resolution

Phyre2

PDB 2a0j chain A

3D model

Region: 446 - 580
Aligned: 135
Modelled: 135
Confidence: 99.9%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:pts system, nitrogen regulatory iia protein;
PDBTitle: crystal structure of nitrogen regulatory protein iia-ntr from2 neisseria meningitidis

Phyre2

PDB 3urr chain B

3D model

Region: 443 - 581
Aligned: 138
Modelled: 139
Confidence: 99.9%
Identity: 17%
PDB header:transferase
Chain: B: PDB Molecule:pts iia-like nitrogen-regulatory protein ptsn;
PDBTitle: structure of pts iia-like nitrogen-regulatory protein ptsn (bth_i0484)2 (ptsn)

Phyre2

PDB 1a3a chain A

3D model

Region: 445 - 580
Aligned: 134
Modelled: 136
Confidence: 99.9%
Identity: 18%
Fold: Phoshotransferase/anion transport protein
Superfamily: Phoshotransferase/anion transport protein
Family: IIA domain of mannitol-specific and ntr phosphotransferase EII

Phyre2

PDB 1a6j chain A

3D model

Region: 443 - 581
Aligned: 139
Modelled: 139
Confidence: 99.9%
Identity: 20%
Fold: Phoshotransferase/anion transport protein
Superfamily: Phoshotransferase/anion transport protein
Family: IIA domain of mannitol-specific and ntr phosphotransferase EII

Phyre2

PDB 1h99 chain A

3D model

Region: 163 - 342
Aligned: 180
Modelled: 180
Confidence: 99.9%
Identity: 8%
PDB header:transcriptional antiterminator
Chain: A: PDB Molecule:transcription antiterminator lict;
PDBTitle: prd of lict antiterminator from bacillus subtilis

Phyre2

PDB 1xiz chain A

3D model

Region: 446 - 581
Aligned: 136
Modelled: 136
Confidence: 99.8%
Identity: 15%
Fold: Phoshotransferase/anion transport protein
Superfamily: Phoshotransferase/anion transport protein
Family: IIA domain of mannitol-specific and ntr phosphotransferase EII

Phyre2

PDB 1h99 chain A domain 2

3D model

Region: 243 - 342
Aligned: 100
Modelled: 100
Confidence: 99.6%
Identity: 7%
Fold: PTS-regulatory domain, PRD
Superfamily: PTS-regulatory domain, PRD
Family: PTS-regulatory domain, PRD

Phyre2

PDB 1h99 chain A domain 1

3D model

Region: 237 - 340
Aligned: 103
Modelled: 104
Confidence: 99.5%
Identity: 8%
Fold: PTS-regulatory domain, PRD
Superfamily: PTS-regulatory domain, PRD
Family: PTS-regulatory domain, PRD

Phyre2

PDB 3gwh chain B

3D model

Region: 250 - 342
Aligned: 93
Modelled: 93
Confidence: 99.5%
Identity: 12%
PDB header:transcription
Chain: B: PDB Molecule:transcriptional antiterminator (bglg family);
PDBTitle: crystallographic ab initio protein solution far below atomic2 resolution

Phyre2

PDB 1j5y chain A domain 1

3D model

Region: 1 - 61
Aligned: 57
Modelled: 57
Confidence: 98.9%
Identity: 35%
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: 3 - 61
Aligned: 55
Modelled: 59
Confidence: 98.8%
Identity: 27%
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: 1 - 61
Aligned: 57
Modelled: 61
Confidence: 98.7%
Identity: 33%
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 1tvm chain A

3D model

Region: 336 - 435
Aligned: 100
Modelled: 100
Confidence: 98.5%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:pts system, galactitol-specific iib component;
PDBTitle: nmr structure of enzyme gatb of the galactitol-specific2 phosphoenolpyruvate-dependent phosphotransferase system

Phyre2

PDB 1vkr chain A

3D model

Region: 345 - 438
Aligned: 91
Modelled: 94
Confidence: 98.2%
Identity: 12%
Fold: Phosphotyrosine protein phosphatases I-like
Superfamily: PTS system IIB component-like
Family: PTS system, Lactose/Cellobiose specific IIB subunit

Phyre2

PDB 3c7j chain A

3D model

Region: 18 - 73
Aligned: 52
Modelled: 51
Confidence: 92.9%
Identity: 15%
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

c3sqnB_
2

c3bjvA_
3

c2oq3A_
4

c2oqtD_
5

c3oxpB_
6

c3oxpA_
7

c2a0jA_
8

c3urrB_
9

d1a3aa_
10

d1a6ja_
11

c1h99A_
12

d1xiza_
13

d1h99a2
14

d1h99a1
15

c3gwhB_
16

d1j5ya1
17

d1biaa1
18

c1j5yA_
19

c1tvmA_
20

d1vkra_
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c3c7jA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3sqnB_



100.0 10 PDB header:transcription regulator
Chain: B: PDB Molecule:conserved domain protein;
PDBTitle: putative mga family transcriptional regulator from enterococcus2 faecalis
2c3bjvA_



99.9 14 PDB header:transferase
Chain: A: PDB Molecule:rmpa;
PDBTitle: the crystal structure of a putative pts iia(ptxa) from streptococcus2 mutans
3c2oq3A_



99.9 19 PDB header:transferase
Chain: A: PDB Molecule:mannitol-specific cryptic phosphotransferase
PDBTitle: solution structure of the mannitol- specific cryptic2 phosphotransferase enzyme iia cmtb from escherichia coli
4c2oqtD_



99.9 16 PDB header:transferase
Chain: D: PDB Molecule:hypothetical protein spy0176;
PDBTitle: structural genomics, the crystal structure of a putative2 pts iia domain from streptococcus pyogenes m1 gas
5c3oxpB_



99.9 12 PDB header:transferase
Chain: B: PDB Molecule:phosphotransferase enzyme ii, a component;
PDBTitle: structure of phosphotransferase enzyme ii, a component from yersinia2 pestis co92 at 1.2 a resolution
6c3oxpA_



99.9 12 PDB header:transferase
Chain: A: PDB Molecule:phosphotransferase enzyme ii, a component;
PDBTitle: structure of phosphotransferase enzyme ii, a component from yersinia2 pestis co92 at 1.2 a resolution
7c2a0jA_



99.9 20 PDB header:transferase
Chain: A: PDB Molecule:pts system, nitrogen regulatory iia protein;
PDBTitle: crystal structure of nitrogen regulatory protein iia-ntr from2 neisseria meningitidis
8c3urrB_



99.9 17 PDB header:transferase
Chain: B: PDB Molecule:pts iia-like nitrogen-regulatory protein ptsn;
PDBTitle: structure of pts iia-like nitrogen-regulatory protein ptsn (bth_i0484)2 (ptsn)
9d1a3aa_



99.9 18 Fold:Phoshotransferase/anion transport protein
Superfamily:Phoshotransferase/anion transport protein
Family:IIA domain of mannitol-specific and ntr phosphotransferase EII
10d1a6ja_



99.9 20 Fold:Phoshotransferase/anion transport protein
Superfamily:Phoshotransferase/anion transport protein
Family:IIA domain of mannitol-specific and ntr phosphotransferase EII
11c1h99A_



99.9 8 PDB header:transcriptional antiterminator
Chain: A: PDB Molecule:transcription antiterminator lict;
PDBTitle: prd of lict antiterminator from bacillus subtilis
12d1xiza_



99.8 15 Fold:Phoshotransferase/anion transport protein
Superfamily:Phoshotransferase/anion transport protein
Family:IIA domain of mannitol-specific and ntr phosphotransferase EII
13d1h99a2



99.6 7 Fold:PTS-regulatory domain, PRD
Superfamily:PTS-regulatory domain, PRD
Family:PTS-regulatory domain, PRD
14d1h99a1



99.5 8 Fold:PTS-regulatory domain, PRD
Superfamily:PTS-regulatory domain, PRD
Family:PTS-regulatory domain, PRD
15c3gwhB_



99.5 12 PDB header:transcription
Chain: B: PDB Molecule:transcriptional antiterminator (bglg family);
PDBTitle: crystallographic ab initio protein solution far below atomic2 resolution
16d1j5ya1



98.9 35 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
17d1biaa1



98.8 27 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
18c1j5yA_



98.7 33 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
19c1tvmA_



98.5 12 PDB header:transferase
Chain: A: PDB Molecule:pts system, galactitol-specific iib component;
PDBTitle: nmr structure of enzyme gatb of the galactitol-specific2 phosphoenolpyruvate-dependent phosphotransferase system
20d1vkra_



98.2 12 Fold:Phosphotyrosine protein phosphatases I-like
Superfamily:PTS system IIB component-like
Family:PTS system, Lactose/Cellobiose specific IIB subunit
21c1vkrA_



not modelled 98.2 12 PDB header:transferase
Chain: A: PDB Molecule:mannitol-specific pts system enzyme iiabc components;
PDBTitle: structure of iib domain of the mannitol-specific permease enzyme ii
22c3czcA_



not modelled 98.0 13 PDB header:transferase
Chain: A: PDB Molecule:rmpb;
PDBTitle: the crystal structure of a putative pts iib(ptxb) from2 streptococcus mutans
23c2ewnA_



not modelled 97.6 27 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
24d1stza1



not modelled 97.4 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
25d2cg4a1



not modelled 97.3 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
26c1u78A_



not modelled 97.3 14 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
27c2q0oA_



not modelled 97.2 23 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
28c1h0mD_



not modelled 97.2 13 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
29c3sztB_



not modelled 97.2 21 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
30c3qp5C_



not modelled 97.1 23 PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
31c1ys7B_



not modelled 97.1 16 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulatory protein prra;
PDBTitle: crystal structure of the response regulator protein prra comlexed with2 mg2+
32d1l3la1



not modelled 97.0 13 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)
33d1a04a1



not modelled 96.9 17 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)
34d1p4wa_



not modelled 96.9 17 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)
35c2cg4B_



not modelled 96.8 25 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
36c2rnjA_



not modelled 96.8 21 PDB header:transcription
Chain: A: PDB Molecule:response regulator protein vrar;
PDBTitle: nmr structure of the s. aureus vrar dna binding domain
37c1zljE_



not modelled 96.8 17 PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
38d1fsea_



not modelled 96.8 27 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)
39c3cloC_



not modelled 96.8 21 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
40c2oqrA_



not modelled 96.7 19 PDB header:transcription,signaling protein
Chain: A: PDB Molecule:sensory transduction protein regx3;
PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis
41d1yioa1



not modelled 96.6 17 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)
42c2krfB_



not modelled 96.6 25 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein coma;
PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a
43c3c3wB_



not modelled 96.6 17 PDB header:transcription
Chain: B: PDB Molecule:two component transcriptional regulatory protein devr;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr
44c1kgsA_



not modelled 96.5 23 PDB header:dna binding protein
Chain: A: PDB Molecule:dna binding response regulator d;
PDBTitle: crystal structure at 1.50 a of an ompr/phob homolog from thermotoga2 maritima
45c2hqrA_



not modelled 96.5 10 PDB header:signaling protein
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism
46c3hruA_



not modelled 96.5 23 PDB header:transcription
Chain: A: PDB Molecule:metalloregulator scar;
PDBTitle: crystal structure of scar with bound zn2+
47c1stzB_



not modelled 96.5 26 PDB header:transcription
Chain: B: PDB Molecule:heat-inducible transcription repressor hrca homolog;
PDBTitle: crystal structure of a hypothetical protein at 2.2 a resolution
48c2hwvA_



not modelled 96.5 20 PDB header:transcription
Chain: A: PDB Molecule:dna-binding response regulator vicr;
PDBTitle: crystal structure of an essential response regulator dna binding2 domain, vicrc in enterococcus faecalis, a member of the yycf3 subfamily.
49d1i1ga1



not modelled 96.5 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
50c2it0A_



not modelled 96.4 16 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
51c2l4aA_



not modelled 96.4 21 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
52c1x3uA_



not modelled 96.4 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein fixj;
PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot
53d2cfxa1



not modelled 96.3 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
54d1ys7a1



not modelled 96.3 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:PhoB-like
55d2cyya1



not modelled 96.3 28 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
56c3nufB_



not modelled 96.3 15 PDB header:transcription regulator
Chain: B: PDB Molecule:prd-containing transcription regulator;
PDBTitle: crystal structure of a prd-containing transcription regulator2 (lsei_2718) from lactobacillus casei atcc 334 at 1.38 a resolution
57c2zxjB_



not modelled 96.2 23 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein walr;
PDBTitle: crystal structure of yycf dna-binding domain from staphylococcus2 aureus
58c1rnlA_



not modelled 96.2 17 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
59c2gwrA_



not modelled 96.1 16 PDB header:signaling protein
Chain: A: PDB Molecule:dna-binding response regulator mtra;
PDBTitle: crystal structure of the response regulator protein mtra from2 mycobacterium tuberculosis
60c2vbzA_



not modelled 96.0 24 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
61d1gxqa_



not modelled 96.0 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:PhoB-like
62c2pmuD_



not modelled 96.0 10 PDB header:transcription regulation
Chain: D: PDB Molecule:response regulator phop;
PDBTitle: crystal structure of the dna-binding domain of phop
63c2dbbA_



not modelled 96.0 26 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
64c2jpcA_



not modelled 95.9 14 PDB header:dna binding protein
Chain: A: PDB Molecule:ssrb;
PDBTitle: ssrb dna binding protein
65c1p4xA_



not modelled 95.9 17 PDB header:transcription
Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue;
PDBTitle: crystal structure of sars protein from staphylococcus aureus
66d1o57a1



not modelled 95.9 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:N-terminal domain of Bacillus PurR
67c2ia0A_



not modelled 95.9 29 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)
68c3lmmA_



not modelled 95.9 18 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
69c1f5tA_



not modelled 95.9 14 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
70c2p6tH_



not modelled 95.8 26 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
71c2x4hA_



not modelled 95.8 14 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
72c2e1cA_



not modelled 95.7 29 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
73c3hosA_



not modelled 95.7 20 PDB header:transferase, dna binding protein/dna
Chain: A: PDB Molecule:transposable element mariner, complete cds;
PDBTitle: crystal structure of the mariner mos1 paired end complex with mg
74c1i1gA_



not modelled 95.7 23 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
75d1t6sa1



not modelled 95.7 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ScpB/YpuH-like
76c2jzyA_



not modelled 95.7 22 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein pcor;
PDBTitle: solution structure of c-terminal effector domain of2 putative two-component-system response regulator involved3 in copper resistance from klebsiella pneumoniae
77c2qufB_



not modelled 95.7 17 PDB header:transcription
Chain: B: PDB Molecule:transcription factor pf0095;
PDBTitle: crystal structure of transcription factor axxa-pf0095 from pyrococcus2 furiosus
78c2e7xA_



not modelled 95.6 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
79d1xsva_



not modelled 95.6 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
80c1r22B_



not modelled 95.6 18 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
81c3neuA_



not modelled 95.5 14 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
82c3r0jA_



not modelled 95.5 11 PDB header:dna binding protein
Chain: A: PDB Molecule:possible two component system response transcriptional
PDBTitle: structure of phop from mycobacterium tuberculosis
83c3q9vB_



not modelled 95.5 25 PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding response regulator;
PDBTitle: crystal structure of rra c-terminal domain(123-221) from deinococcus2 radiodurans
84c2cfxD_



not modelled 95.5 19 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
85c2h09A_



not modelled 95.4 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
86d1r1ta_



not modelled 95.4 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
87c3by6C_



not modelled 95.4 20 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
88c2oqgA_



not modelled 95.4 16 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
89c2hqnA_



not modelled 95.3 12 PDB header:signaling protein
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism
90d1opca_



not modelled 95.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:PhoB-like
91d1r1ua_



not modelled 95.3 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
92c2gqqB_



not modelled 95.2 18 PDB header:transcription
Chain: B: PDB Molecule:leucine-responsive regulatory protein;
PDBTitle: crystal structure of e. coli leucine-responsive regulatory protein2 (lrp)
93d1jhfa1



not modelled 95.2 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
94d2d1ha1



not modelled 95.2 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
95d1rp3a2



not modelled 95.2 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
96c3i4pA_



not modelled 95.0 22 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
97c3f6vA_



not modelled 94.9 17 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
98d1s7oa_



not modelled 94.9 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
99c2k4jA_



not modelled 94.8 23 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: arsr dna binding domain
100c1fx7C_



not modelled 94.8 16 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
101d1p2fa1



not modelled 94.8 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:PhoB-like
102c2zhhA_



not modelled 94.7 19 PDB header:transcription
Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr;
PDBTitle: crystal structure of soxr
103c3jthA_



not modelled 94.7 19 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
104c2wteB_



not modelled 94.7 21 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.
105c2kkoB_



not modelled 94.7 25 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.
106c3hh0C_



not modelled 94.6 13 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator, merr family;
PDBTitle: crystal strucure of a transcriptional regulator, merr family2 from bacillus cereus
107d1kgsa1



not modelled 94.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:PhoB-like
108d1or7a1



not modelled 94.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
109c2jscB_



not modelled 94.5 16 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
110c1p2fA_



not modelled 94.5 20 PDB header:transcription
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure analysis of response regulator drrb, a2 thermotoga maritima ompr/phob homolog
111c3hugA_



not modelled 94.5 13 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
112c3f6oB_



not modelled 94.4 18 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
113c1g3wA_



not modelled 94.2 17 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
114d2p4wa1



not modelled 94.2 29 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
115c3eqxB_



not modelled 94.1 15 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
116c2du9A_



not modelled 94.1 10 PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum
117d1r8ea1



not modelled 94.1 12 Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:DNA-binding N-terminal domain of transcription activators
118d3bwga1



not modelled 94.0 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
119c2hs5A_



not modelled 93.8 12 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
120c2z99A_



not modelled 93.8 20 PDB header:cell cycle
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of scpb from mycobacterium tuberculosis

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