Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionQ9S4W2
DateThu Jan 5 12:38:17 GMT 2012
Unique Job ID47edf7051528af1b

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1vz0B_
Top template information
PDB header:nuclear protein
Chain: B: PDB Molecule:chromosome partitioning protein parb;
PDBTitle: chromosome segregation protein spo0j from thermus2 thermophilus
Confidence and coverage
Confidence:100.0% Coverage: 28%
180 residues ( 28% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSVTESKAKTERKSSRKPAKTQETVLSALLAQTEEVSVPLASLIKSPLNVRTVPYSAESV
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Disorder  ???????????????????????????????????

















?
?



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   .........70.........80.........90.........100.........110.........120
Sequence  SELADSIKGVGLLQNLVVHALPGDRYGVAAGGRRLAALNMLAERDIIQVDWPVRVKVIPQ
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   .........130.........140.........150.........160.........170.........180
Sequence  ELATAASMTENGHRRDMHPAEQIAGFRAMAQEGKTPAQIGDLLGYSPRHVQRMLKLADLA
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??
























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   .........190.........200.........210.........220.........230.........240
Sequence  PVILDALAEDRITTEHCQALALENDTARQVQVFEAACQSGWGGKPDVRVIRNLITESEVA
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??


























????











??????
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   .........250.........260.........270.........280.........290.........300
Sequence  VKDNTKFRFVGADAFSPDELRTDLFSDDEGGYVDCVALDAALLEKLQAVAEHLREAEGWE
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   .........310.........320.........330.........340.........350.........360
Sequence  WCAGRMEPVGECREDSRAYRNLPEPEAVLTEAEEERLNELMMRYDALENQCEESDLLAAE
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??

??



















??????
?


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   .........370.........380.........390.........400.........410.........420
Sequence  MKLIDCMAKVRAWTPEMRAGSGVVVSWRYGNVCVQRGVQLRSEDDVTDDADRTEQVQEKA
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?
?
?
























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























































?
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   .........490.........500.........510.........520.........530.........540
Sequence  KHYSLTSDAPSGKEGAAFMALMAEKARLVVLLPEGWSRDMTTFLSLSQEVLLSLLSFCTA
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Disorder  ??????????
?

















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   .........550.........560.........570.........580.........590.........600
Sequence  CSIHGVQTRECGHTSRSPLDPLETAIGFHMRDWWQPTKANFFGHLKKPQIIAALNEAGLS
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????????????






































?


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   .........610.........620.........630.........640.........650..
Sequence  GAARDAEKMKKGDAAEHAEFHMKDNRWVPGWMCAPRPQTDATERTDNLADAA
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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 1vz0 chain B

3D model

Region: 35 - 222
Aligned: 180
Modelled: 188
Confidence: 100.0%
Identity: 33%
PDB header:nuclear protein
Chain: B: PDB Molecule:chromosome partitioning protein parb;
PDBTitle: chromosome segregation protein spo0j from thermus2 thermophilus

Phyre2

PDB 1vk1 chain A

3D model

Region: 38 - 194
Aligned: 151
Modelled: 157
Confidence: 99.9%
Identity: 17%
Fold: ParB/Sulfiredoxin
Superfamily: ParB/Sulfiredoxin
Family: Hypothetical protein PF0380

Phyre2

PDB 1vz0 chain A domain 2

3D model

Region: 35 - 134
Aligned: 93
Modelled: 99
Confidence: 99.9%
Identity: 41%
Fold: ParB/Sulfiredoxin
Superfamily: ParB/Sulfiredoxin
Family: ParB-like nuclease domain

Phyre2

PDB 1vz0 chain A domain 1

3D model

Region: 135 - 222
Aligned: 87
Modelled: 88
Confidence: 99.8%
Identity: 25%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: KorB DNA-binding domain-like
Family: KorB DNA-binding domain-like

Phyre2

PDB 1r71 chain B

3D model

Region: 124 - 236
Aligned: 113
Modelled: 113
Confidence: 99.8%
Identity: 21%
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

Phyre2

PDB 1r71 chain A

3D model

Region: 127 - 236
Aligned: 110
Modelled: 110
Confidence: 99.7%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: KorB DNA-binding domain-like
Family: KorB DNA-binding domain-like

Phyre2

PDB 2b6f chain A domain 1

3D model

Region: 13 - 133
Aligned: 112
Modelled: 121
Confidence: 99.7%
Identity: 21%
Fold: ParB/Sulfiredoxin
Superfamily: ParB/Sulfiredoxin
Family: Sulfiredoxin-like

Phyre2

PDB 1xw3 chain A domain 1

3D model

Region: 28 - 133
Aligned: 97
Modelled: 106
Confidence: 99.7%
Identity: 24%
Fold: ParB/Sulfiredoxin
Superfamily: ParB/Sulfiredoxin
Family: Sulfiredoxin-like

Phyre2

PDB 3mky chain P

3D model

Region: 136 - 236
Aligned: 100
Modelled: 101
Confidence: 99.2%
Identity: 15%
PDB header:dna binding protein/dna
Chain: P: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form

Phyre2

PDB 3mkz chain U

3D model

Region: 136 - 218
Aligned: 82
Modelled: 83
Confidence: 99.1%
Identity: 15%
PDB header:dna-binding protein/dna
Chain: U: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-272)-18mer complex, p21 form

Phyre2

PDB 1zx4 chain B

3D model

Region: 138 - 201
Aligned: 64
Modelled: 64
Confidence: 97.3%
Identity: 17%
PDB header:translation
Chain: B: PDB Molecule:plasmid partition par b protein;
PDBTitle: structure of parb bound to dna

Phyre2

PDB 1u78 chain A

3D model

Region: 134 - 175
Aligned: 41
Modelled: 42
Confidence: 94.6%
Identity: 15%
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 2w48 chain D

3D model

Region: 143 - 177
Aligned: 35
Modelled: 35
Confidence: 94.5%
Identity: 26%
PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae

Phyre2

PDB 2elh chain A

3D model

Region: 134 - 175
Aligned: 41
Modelled: 42
Confidence: 93.5%
Identity: 17%
PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa

Phyre2

PDB 3szt chain B

3D model

Region: 131 - 175
Aligned: 43
Modelled: 45
Confidence: 92.5%
Identity: 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

Phyre2

PDB 1bw6 chain A

3D model

Region: 134 - 175
Aligned: 41
Modelled: 42
Confidence: 92.1%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Centromere-binding

Phyre2

PDB 2q0o chain A

3D model

Region: 136 - 175
Aligned: 38
Modelled: 40
Confidence: 92.0%
Identity: 32%
PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing

Phyre2

PDB 2cg4 chain A domain 1

3D model

Region: 137 - 175
Aligned: 38
Modelled: 39
Confidence: 91.8%
Identity: 13%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Lrp/AsnC-like transcriptional regulator N-terminal domain

Phyre2

PDB 2hwj chain A domain 1

3D model

Region: 32 - 155
Aligned: 94
Modelled: 106
Confidence: 91.8%
Identity: 13%
Fold: ParB/Sulfiredoxin
Superfamily: ParB/Sulfiredoxin
Family: Atu1540-like

Phyre2

PDB 2e1c chain A

3D model

Region: 136 - 175
Aligned: 39
Modelled: 40
Confidence: 91.5%
Identity: 10%
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

Phyre2
1

c1vz0B_
2

d1vk1a_
3

d1vz0a2
4

d1vz0a1
5

c1r71B_
6

d1r71a_
7

d2b6fa1
8

d1xw3a1
9

c3mkyP_
10

c3mkzU_
11

c1zx4B_
12

c1u78A_
13

c2w48D_
14

c2elhA_
15

c3sztB_
16

d1bw6a_
17

c2q0oA_
18

d2cg4a1
19

d2hwja1
20

c2e1cA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1vz0B_



100.0 33 PDB header:nuclear protein
Chain: B: PDB Molecule:chromosome partitioning protein parb;
PDBTitle: chromosome segregation protein spo0j from thermus2 thermophilus
2d1vk1a_



99.9 17 Fold:ParB/Sulfiredoxin
Superfamily:ParB/Sulfiredoxin
Family:Hypothetical protein PF0380
3d1vz0a2



99.9 41 Fold:ParB/Sulfiredoxin
Superfamily:ParB/Sulfiredoxin
Family:ParB-like nuclease domain
4d1vz0a1



99.8 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
5c1r71B_



99.8 21 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
6d1r71a_



99.7 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
7d2b6fa1



99.7 21 Fold:ParB/Sulfiredoxin
Superfamily:ParB/Sulfiredoxin
Family:Sulfiredoxin-like
8d1xw3a1



99.7 24 Fold:ParB/Sulfiredoxin
Superfamily:ParB/Sulfiredoxin
Family:Sulfiredoxin-like
9c3mkyP_



99.2 15 PDB header:dna binding protein/dna
Chain: P: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form
10c3mkzU_



99.1 15 PDB header:dna-binding protein/dna
Chain: U: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-272)-18mer complex, p21 form
11c1zx4B_



97.3 17 PDB header:translation
Chain: B: PDB Molecule:plasmid partition par b protein;
PDBTitle: structure of parb bound to dna
12c1u78A_



94.6 15 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
13c2w48D_



94.5 26 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
14c2elhA_



93.5 17 PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa
15c3sztB_



92.5 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
16d1bw6a_



92.1 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
17c2q0oA_



92.0 32 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
18d2cg4a1



91.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
19d2hwja1



91.8 13 Fold:ParB/Sulfiredoxin
Superfamily:ParB/Sulfiredoxin
Family:Atu1540-like
20c2e1cA_



91.5 10 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
21d1fsea_



not modelled 91.5 18 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)
22c2cg4B_



not modelled 91.4 13 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
23c2vbzA_



not modelled 91.2 21 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
24c2ia0A_



not modelled 91.2 10 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)
25c1zljE_



not modelled 91.0 21 PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
26c2dbbA_



not modelled 90.7 10 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
27c1h0mD_



not modelled 90.6 28 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
28c2krfB_



not modelled 90.6 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
29d1k78a1



not modelled 90.5 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
30d2cfxa1



not modelled 90.2 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
31c3qp5C_



not modelled 90.1 23 PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
32c2p6tH_



not modelled 90.0 21 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
33c2gm4B_



not modelled 90.0 15 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
34d1hlva1



not modelled 90.0 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
35d1p4wa_



not modelled 89.9 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
36d1lmb3_



not modelled 89.9 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
37d1pdnc_



not modelled 89.7 27 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
38d1i1ga1



not modelled 89.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
39c2x48B_



not modelled 89.5 35 PDB header:viral protein
Chain: B: PDB Molecule:cag38821;
PDBTitle: orf 55 from sulfolobus islandicus rudivirus 1
40c1rp3G_



not modelled 89.5 13 PDB header:transcription
Chain: G: PDB Molecule:rna polymerase sigma factor sigma-28 (flia);
PDBTitle: cocrystal structure of the flagellar sigma/anti-sigma2 complex, sigma-28/flgm
41d1qpza1



not modelled 89.4 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
42d1rp3a2



not modelled 89.4 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
43c2l4aA_



not modelled 89.3 13 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
44c3hugA_



not modelled 89.2 28 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
45c2e7xA_



not modelled 89.1 11 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
46d1a04a1



not modelled 88.9 18 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)
47d2cyya1



not modelled 88.9 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
48d1yioa1



not modelled 88.9 18 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)
49d1xsva_



not modelled 88.8 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
50d1l3la1



not modelled 88.8 29 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)
51c2r0qF_



not modelled 88.5 17 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
52d6paxa1



not modelled 88.4 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
53c3gn5B_



not modelled 88.1 20 PDB header:dna binding protein
Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021);
PDBTitle: structure of the e. coli protein mqsa (ygit/b3021)
54c6paxA_



not modelled 87.6 24 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
55d1rioa_



not modelled 87.6 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
56d1nera_



not modelled 87.5 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
57c1hlvA_



not modelled 87.5 16 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
58c2cfxD_



not modelled 87.2 10 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
59c3pxpA_



not modelled 86.9 26 PDB header:transcription regulator
Chain: A: PDB Molecule:helix-turn-helix domain protein;
PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution
60c2o8xA_



not modelled 86.8 11 PDB header:transcription
Chain: A: PDB Molecule:probable rna polymerase sigma-c factor;
PDBTitle: crystal structure of the "-35 element" promoter recognition domain of2 mycobacterium tuberculosis sigc
61c3cecA_



not modelled 86.7 25 PDB header:transcription
Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system;
PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution
62c1or7A_



not modelled 86.6 13 PDB header:transcription
Chain: A: PDB Molecule:rna polymerase sigma-e factor;
PDBTitle: crystal structure of escherichia coli sigmae with the cytoplasmic2 domain of its anti-sigma rsea
63c3mzyA_



not modelled 85.9 9 PDB header:rna binding protein
Chain: A: PDB Molecule:rna polymerase sigma-h factor;
PDBTitle: the crystal structure of the rna polymerase sigma-h factor from2 fusobacterium nucleatum to 2.5a
64d1s7oa_



not modelled 85.6 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:YlxM/p13-like
65c1x3uA_



not modelled 85.6 22 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
66c3m1eA_



not modelled 85.4 19 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of benm_dbd
67d1hcra_



not modelled 85.2 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Recombinase DNA-binding domain
68c1i1gA_



not modelled 85.1 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
69c2jpcA_



not modelled 84.9 25 PDB header:dna binding protein
Chain: A: PDB Molecule:ssrb;
PDBTitle: ssrb dna binding protein
70d1ijwc_



not modelled 84.8 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Recombinase DNA-binding domain
71d1llib_



not modelled 84.7 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
72d2ofya1



not modelled 84.6 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
73c3i4pA_



not modelled 84.0 17 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
74c3h5tA_



not modelled 83.9 21 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
75d1trra_



not modelled 83.7 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Trp repressor, TrpR
76c3cloC_



not modelled 83.3 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
77d1or7a1



not modelled 83.2 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
78c1bdhA_



not modelled 83.0 11 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
79c3bdnB_



not modelled 82.9 18 PDB header:transcription/dna
Chain: B: PDB Molecule:lambda repressor;
PDBTitle: crystal structure of the lambda repressor
80c1umqA_



not modelled 82.8 15 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
81d1umqa_



not modelled 82.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
82c2rnjA_



not modelled 82.5 9 PDB header:transcription
Chain: A: PDB Molecule:response regulator protein vrar;
PDBTitle: nmr structure of the s. aureus vrar dna binding domain
83d1uxca_



not modelled 82.1 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
84c2fjrB_



not modelled 81.8 7 PDB header:transcription regulator
Chain: B: PDB Molecule:repressor protein ci;
PDBTitle: crystal structure of bacteriophage 186
85d2d1ha1



not modelled 81.8 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
86c3b73A_



not modelled 81.7 24 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phih1 repressor-like protein;
PDBTitle: crystal structure of the phih1 repressor-like protein from2 haloarcula marismortui
87c2v79B_



not modelled 81.7 13 PDB header:dna-binding protein
Chain: B: PDB Molecule:dna replication protein dnad;
PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis
88d1biaa1



not modelled 81.2 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
89c2vn2B_



not modelled 80.6 17 PDB header:replication
Chain: B: PDB Molecule:chromosome replication initiation protein;
PDBTitle: crystal structure of the n-terminal domain of dnad protein2 from geobacillus kaustophilus hta426
90d1jhga_



not modelled 80.5 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Trp repressor, TrpR
91c3c3wB_



not modelled 80.1 16 PDB header:transcription
Chain: B: PDB Molecule:two component transcriptional regulatory protein devr;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr
92c3t76A_



not modelled 79.4 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator vanug;
PDBTitle: crystal structure of transcriptional regulator vanug, form ii
93d1tc3c_



not modelled 79.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Recombinase DNA-binding domain
94c2gqqB_



not modelled 78.8 11 PDB header:transcription
Chain: B: PDB Molecule:leucine-responsive regulatory protein;
PDBTitle: crystal structure of e. coli leucine-responsive regulatory protein2 (lrp)
95d1lcda_



not modelled 78.1 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
96c1zvvA_



not modelled 78.0 15 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
97d1ttya_



not modelled 77.8 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
98c2oqgA_



not modelled 77.6 8 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
99d1ntca_



not modelled 77.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
100c3trbA_



not modelled 77.0 15 PDB header:dna binding protein
Chain: A: PDB Molecule:virulence-associated protein i;
PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii
101d2hsga1



not modelled 77.0 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
102c3omtA_



not modelled 76.1 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae.
103d1r1ua_



not modelled 76.1 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
104d2bjca1



not modelled 75.7 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
105c2jvlA_



not modelled 75.7 21 PDB header:transcription
Chain: A: PDB Molecule:trmbf1;
PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei
106c2wteB_



not modelled 75.6 12 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.
107d2a6ca1



not modelled 75.0 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
108c2zhhA_



not modelled 75.0 11 PDB header:transcription
Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr;
PDBTitle: crystal structure of soxr
109c2zkzC_



not modelled 74.6 14 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
110c2ppxA_



not modelled 74.4 4 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 74.4 4 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
112d1uxda_



not modelled 74.1 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
113c2lcvA_



not modelled 73.9 14 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional repressor cytr;
PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
114d1ku7a_



not modelled 73.8 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
115d1j5ya1



not modelled 73.7 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
116d2p7vb1



not modelled 73.1 7 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
117d1etob_



not modelled 73.0 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
118c3klnC_



not modelled 72.7 22 PDB header:transcription
Chain: C: PDB Molecule:transcriptional regulator, luxr family;
PDBTitle: vibrio cholerae vpst
119c2kpjA_



not modelled 72.7 21 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
120c3fmyA_



not modelled 72.7 13 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)

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