Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76135
DateThu Jan 5 12:19:26 GMT 2012
Unique Job IDfb0e4594fef83489

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3gbgA_
Top template information
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
Confidence and coverage
Confidence:100.0% Coverage: 89%
224 residues ( 89% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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
























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Disorder  ?????






















































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   .........70.........80.........90.........100.........110.........120
Sequence  YLQCTNIQTVTVPVPAKFLRASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAA
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Disorder 



?
?
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?

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   .........130.........140.........150.........160.........170.........180
Sequence  CKGFITLLTNGVLSVSGKVRNIVNMKPAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQ
Secondary structure 
















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Disorder  ??????????????











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

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?????
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   .........250...
Sequence  GMNTGNTMNALAI
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 3gbg chain A

3D model

Region: 7 - 233
Aligned: 224
Modelled: 227
Confidence: 100.0%
Identity: 16%
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395

Phyre2

PDB 3oou chain A

3D model

Region: 133 - 235
Aligned: 103
Modelled: 103
Confidence: 99.9%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua

Phyre2

PDB 3mkl chain B

3D model

Region: 129 - 237
Aligned: 109
Modelled: 109
Confidence: 99.9%
Identity: 38%
PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12

Phyre2

PDB 1d5y chain D

3D model

Region: 132 - 232
Aligned: 101
Modelled: 101
Confidence: 99.9%
Identity: 17%
PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna

Phyre2

PDB 3oio chain A

3D model

Region: 129 - 235
Aligned: 107
Modelled: 107
Confidence: 99.9%
Identity: 22%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum

Phyre2

PDB 1bl0 chain A

3D model

Region: 132 - 243
Aligned: 112
Modelled: 112
Confidence: 99.9%
Identity: 13%
PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex

Phyre2

PDB 3mn2 chain B

3D model

Region: 134 - 235
Aligned: 102
Modelled: 102
Confidence: 99.9%
Identity: 21%
PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009

Phyre2

PDB 2k9s chain A

3D model

Region: 132 - 235
Aligned: 104
Modelled: 104
Confidence: 99.9%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac

Phyre2

PDB 3lsg chain D

3D model

Region: 137 - 224
Aligned: 88
Modelled: 88
Confidence: 99.7%
Identity: 28%
PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586

Phyre2

PDB 1d5y chain A domain 2

3D model

Region: 185 - 240
Aligned: 56
Modelled: 56
Confidence: 99.3%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1bl0 chain A domain 2

3D model

Region: 185 - 232
Aligned: 48
Modelled: 48
Confidence: 99.3%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1d5y chain A domain 1

3D model

Region: 132 - 183
Aligned: 52
Modelled: 52
Confidence: 98.7%
Identity: 10%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1bl0 chain A domain 1

3D model

Region: 132 - 183
Aligned: 52
Modelled: 52
Confidence: 98.7%
Identity: 12%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1zgw chain A

3D model

Region: 134 - 189
Aligned: 54
Modelled: 56
Confidence: 98.5%
Identity: 15%
PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna

Phyre2

PDB 2arc chain A

3D model

Region: 7 - 121
Aligned: 115
Modelled: 115
Confidence: 97.9%
Identity: 12%
Fold: Double-stranded beta-helix
Superfamily: Regulatory protein AraC
Family: Regulatory protein AraC

Phyre2

PDB 3fjs chain C

3D model

Region: 6 - 53
Aligned: 48
Modelled: 48
Confidence: 96.3%
Identity: 4%
PDB header:biosynthetic protein
Chain: C: PDB Molecule:uncharacterized protein with rmlc-like cupin fold;
PDBTitle: crystal structure of a putative biosynthetic protein with rmlc-like2 cupin fold (reut_b4087) from ralstonia eutropha jmp134 at 1.90 a3 resolution

Phyre2

PDB 3ibm chain B

3D model

Region: 6 - 53
Aligned: 48
Modelled: 48
Confidence: 96.1%
Identity: 4%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of cupin 2 domain-containing protein hhal_0468 from2 halorhodospira halophila

Phyre2

PDB 1y9q chain A domain 2

3D model

Region: 6 - 53
Aligned: 48
Modelled: 48
Confidence: 96.0%
Identity: 4%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Probable transcriptional regulator VC1968, C-terminal domain

Phyre2

PDB 3kgz chain A

3D model

Region: 2 - 51
Aligned: 50
Modelled: 50
Confidence: 95.9%
Identity: 8%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: crystal structure of a cupin 2 conserved barrel domain protein from2 rhodopseudomonas palustris

Phyre2

PDB 3cew chain A

3D model

Region: 6 - 53
Aligned: 48
Modelled: 48
Confidence: 95.9%
Identity: 6%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized cupin protein;
PDBTitle: crystal structure of a cupin protein (bf4112) from bacteroides2 fragilis. northeast structural genomics consortium target bfr205

Phyre2
1

c3gbgA_
2

c3oouA_
3

c3mklB_
4

c1d5yD_
5

c3oioA_
6

c1bl0A_
7

c3mn2B_
8

c2k9sA_
9

c3lsgD_
10

d1d5ya2
11

d1bl0a2
12

d1d5ya1
13

d1bl0a1
14

c1zgwA_
15

d2arca_
16

c3fjsC_
17

c3ibmB_
18

d1y9qa2
19

c3kgzA_
20

c3cewA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3gbgA_



100.0 16 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
2c3oouA_



99.9 24 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
3c3mklB_



99.9 38 PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12
4c1d5yD_



99.9 17 PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna
5c3oioA_



99.9 22 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum
6c1bl0A_



99.9 13 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
7c3mn2B_



99.9 21 PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009
8c2k9sA_



99.9 17 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
9c3lsgD_



99.7 28 PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586
10d1d5ya2



99.3 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
11d1bl0a2



99.3 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
12d1d5ya1



98.7 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
13d1bl0a1



98.7 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
14c1zgwA_



98.5 15 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
15d2arca_



97.9 12 Fold:Double-stranded beta-helix
Superfamily:Regulatory protein AraC
Family:Regulatory protein AraC
16c3fjsC_



96.3 4 PDB header:biosynthetic protein
Chain: C: PDB Molecule:uncharacterized protein with rmlc-like cupin fold;
PDBTitle: crystal structure of a putative biosynthetic protein with rmlc-like2 cupin fold (reut_b4087) from ralstonia eutropha jmp134 at 1.90 a3 resolution
17c3ibmB_



96.1 4 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of cupin 2 domain-containing protein hhal_0468 from2 halorhodospira halophila
18d1y9qa2



96.0 4 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Probable transcriptional regulator VC1968, C-terminal domain
19c3kgzA_



95.9 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: crystal structure of a cupin 2 conserved barrel domain protein from2 rhodopseudomonas palustris
20c3cewA_



95.9 6 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized cupin protein;
PDBTitle: crystal structure of a cupin protein (bf4112) from bacteroides2 fragilis. northeast structural genomics consortium target bfr205
21c2vpvA_



not modelled 95.8 6 PDB header:cell cycle
Chain: A: PDB Molecule:protein mif2;
PDBTitle: dimerization domain of mif2p
22c3h7yA_



not modelled 95.8 13 PDB header:biosynthetic protein
Chain: A: PDB Molecule:bacilysin biosynthesis protein bacb;
PDBTitle: crystal structure of bacb, an enzyme involved in bacilysin synthesis,2 in tetragonal form
23c3jzvA_



not modelled 95.8 9 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein rru_a2000;
PDBTitle: crystal structure of rru_a2000 from rhodospirillum rubrum: a cupin-22 domain.
24d1y3ta1



not modelled 95.7 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
25c2pfwB_



not modelled 95.6 12 PDB header:unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of a rmlc-like cupin (sfri_3105) from shewanella2 frigidimarina ncimb 400 at 1.90 a resolution
26c2opkC_



not modelled 95.5 11 PDB header:isomerase
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution
27c2gu9B_



not modelled 95.5 8 PDB header:immune system
Chain: B: PDB Molecule:tetracenomycin polyketide synthesis protein;
PDBTitle: crystal structure of xc5357 from xanthomonas campestris: a2 putative tetracenomycin polyketide synthesis protein3 adopting a novel cupin subfamily structure
28c2d40C_



not modelled 95.4 11 PDB header:oxidoreductase
Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase;
PDBTitle: crystal structure of z3393 from escherichia coli o157:h7
29c3lwcA_



not modelled 95.4 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of structural genomics, unknown function2 (yp_766765.1) from rhizobium leguminosarum bv. viciae 3841 at 1.40 a3 resolution
30d1sfna_



not modelled 95.4 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
31c3iwfA_



not modelled 95.4 13 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
32d1yhfa1



not modelled 95.3 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
33d1o4ta_



not modelled 95.3 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
34c2o8qA_



not modelled 95.3 6 PDB header:metal binding protein
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a protein with a cupin-like fold and unknown2 function (bxe_c0505) from burkholderia xenovorans lb400 at 1.55 a3 resolution
35d1sq4a_



not modelled 95.2 4 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
36d2d40a1



not modelled 95.2 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
37d3bu7a1



not modelled 95.2 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
38c3bu7A_



not modelled 95.2 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:gentisate 1,2-dioxygenase;
PDBTitle: crystal structure and biochemical characterization of gdosp,2 a gentisate 1,2-dioxygenase from silicibacter pomeroyi
39d1v70a_



not modelled 95.1 2 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
40d1vj2a_



not modelled 95.0 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
41c2ozjB_



not modelled 94.9 8 PDB header:unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel;
PDBTitle: crystal structure of a cupin superfamily protein (dsy2733) from2 desulfitobacterium hafniense dcb-2 at 1.60 a resolution
42d2phda1



not modelled 94.8 7 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
43c3d82A_



not modelled 94.6 15 PDB header:metal binding protein
Chain: A: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of a cupin-2 domain containing protein (sfri_3543)2 from shewanella frigidimarina ncimb 400 at 2.05 a resolution
44c2i45C_



not modelled 94.3 10 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis
45c3l2hD_



not modelled 94.3 8 PDB header:isomerase
Chain: D: PDB Molecule:putative sugar phosphate isomerase;
PDBTitle: crystal structure of putative sugar phosphate isomerase (afe_0303)2 from acidithiobacillus ferrooxidans atcc 23270 at 1.85 a resolution
46d1rc6a_



not modelled 94.3 19 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
47c2q30C_



not modelled 94.3 6 PDB header:unknown function
Chain: C: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a rmlc-like cupin protein (dde_2303) from2 desulfovibrio desulfuricans subsp. at 1.94 a resolution
48d2b8ma1



not modelled 94.1 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:MJ0764-like
49d1sefa_



not modelled 94.0 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
50c1sefA_



not modelled 94.0 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis
51c3i7dB_



not modelled 93.6 8 PDB header:isomerase
Chain: B: PDB Molecule:sugar phosphate isomerase;
PDBTitle: crystal structure of sugar phosphate isomerase from a cupin2 superfamily spo2919 from silicibacter pomeroyi (yp_168127.1) from3 silicibacter pomeroyi dss-3 at 2.30 a resolution
52d2bnma2



not modelled 93.5 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
53d1lr5a_



not modelled 93.5 2 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
54c3ht2A_



not modelled 93.4 6 PDB header:lyase
Chain: A: PDB Molecule:remf protein;
PDBTitle: zink containing polyketide cyclase remf from streptomyces2 resistomycificus
55d1efaa1



not modelled 93.3 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
56d1yfua1



not modelled 93.3 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
57c3kjxD_



not modelled 93.1 24 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
58d2bjca1



not modelled 93.1 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
59c2o3fC_



not modelled 93.1 12 PDB header:transcription
Chain: C: PDB Molecule:putative hth-type transcriptional regulator ybbh;
PDBTitle: structural genomics, the crystal structure of the n-2 terminal domain of the putative transcriptional regulator3 ybbh from bacillus subtilis subsp. subtilis str. 168.
60d2o3fa1



not modelled 93.1 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:RpiR-like
61c1bdhA_



not modelled 93.0 16 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
62c3h8uA_



not modelled 93.0 6 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized conserved protein with double-stranded
PDBTitle: crystal structure of uncharacterized conserved protein with double-2 stranded beta-helix domain (yp_001338853.1) from klebsiella3 pneumoniae subsp. pneumoniae mgh 78578 at 1.80 a resolution
63d1juha_



not modelled 92.9 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
64c3rnsA_



not modelled 92.9 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: cupin 2 conserved barrel domain protein from leptotrichia buccalis
65c3h5tA_



not modelled 92.7 29 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
66d1qpza1



not modelled 92.3 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
67c2oa2A_



not modelled 92.2 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:bh2720 protein;
PDBTitle: crystal structure of bh2720 (10175341) from bacillus halodurans at2 1.41 a resolution
68c3f0cA_



not modelled 92.0 4 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of transcriptional regulator from cytophaga2 hutchinsonii atcc 33406
69d2pyta1



not modelled 91.8 5 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:EutQ-like
70d1j5ya1



not modelled 91.6 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
71d2f4pa1



not modelled 91.3 7 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
72d1o5ua_



not modelled 91.3 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Hypothetical protein TM1112
73c3dcfB_



not modelled 91.3 11 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator of the tetr/acrr
PDBTitle: crystal structure of transcriptional regulator of the2 tetr/acrr family (yp_290855.1) from thermobifida fusca yx-3 er1 at 2.50 a resolution
74c1vi0B_



not modelled 90.8 5 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator
75d1uika1



not modelled 90.8 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
76d2hsga1



not modelled 90.5 7 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
77c1jumB_



not modelled 90.5 11 PDB header:transcription
Chain: B: PDB Molecule:hypothetical transcriptional regulator in qaca
PDBTitle: crystal structure of the multidrug binding transcriptional2 repressor qacr bound to the natural drug berberine
78c2r0qF_



not modelled 90.4 7 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
79d1mkma1



not modelled 90.3 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
80c3myxA_



not modelled 90.3 6 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pspto_0244;
PDBTitle: crystal structure of a pspto_0244 (protein with unknown function which2 belongs to pfam duf861 family) from pseudomonas syringae pv. tomato3 str. dc3000 at 1.30 a resolution
81c2f07A_



not modelled 90.2 9 PDB header:transcription
Chain: A: PDB Molecule:yvdt;
PDBTitle: crystal structure of yvdt from bacillus subtilis
82d1jt6a1



not modelled 90.0 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
83d1zvfa1



not modelled 89.9 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
84c1u78A_



not modelled 89.9 10 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
85c2ibdB_



not modelled 89.9 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:possible transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulatory protein2 rha5900
86c3bcwB_



not modelled 89.7 11 PDB header:unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a duf861 family protein with a rmlc-like cupin2 fold (bb1179) from bordetella bronchiseptica rb50 at 1.60 a3 resolution
87d2i10a1



not modelled 89.4 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
88d1dgwa_



not modelled 89.4 8 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
89d2gfna1



not modelled 89.4 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
90d1biaa1



not modelled 89.2 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
91c3iuvA_



not modelled 89.1 5 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized tetr family protein;
PDBTitle: the structure of a member of tetr family (sco1917) from2 streptomyces coelicolor a3
92d2fq4a1



not modelled 89.1 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
93c2pbxB_



not modelled 89.0 8 PDB header:transcription
Chain: B: PDB Molecule:hemagglutinin/protease regulatory protein;
PDBTitle: vibrio cholerae hapr
94c3ppbB_



not modelled 88.9 10 PDB header:transcription regulator
Chain: B: PDB Molecule:putative tetr family transcription regulator;
PDBTitle: crystal structure of a putative tetr family transcription regulator2 (shew_3104) from shewanella sp. pv-4 at 2.10 a resolution
95c3e7lD_



not modelled 88.9 21 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain
96c2genA_



not modelled 88.9 8 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional regulator;
PDBTitle: structural genomics, the crystal structure of a probable2 transcriptional regulator from pseudomonas aeruginosa pao1
97d1uxca_



not modelled 88.6 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
98c2dg7A_



not modelled 88.5 4 PDB header:gene regulation
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of the putative transcriptional regulator sco03372 from streptomyces coelicolor a3(2)
99d1lcda_



not modelled 88.5 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
100c2eh3A_



not modelled 88.5 9 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of aq_1058, a transcriptional regulator (terr/acrr2 family) from aquifex aeolicus vf5
101d2cg4a1



not modelled 88.3 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
102d2fbqa1



not modelled 88.3 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
103c3he0A_



not modelled 88.3 1 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: the structure of a putative transcriptional regulator tetr family2 protein from vibrio parahaemolyticus.
104c3f1bA_



not modelled 88.2 12 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr-like transcriptional regulator;
PDBTitle: the crystal structure of a tetr-like transcriptional regulator from2 rhodococcus sp. rha1.
105d1fipa_



not modelled 88.2 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
106d1g2ha_



not modelled 88.2 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
107c2yvhA_



not modelled 88.2 7 PDB header:transcription/dna
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of the operator-binding form of the multi-drug2 binding transcriptional repressor cgmr
108d1v7ba1



not modelled 88.1 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
109d1ui5a1



not modelled 87.8 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
110d3c07a1



not modelled 87.8 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
111d1etxa_



not modelled 87.8 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
112d2d6ya1



not modelled 87.6 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
113d1t56a1



not modelled 87.6 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
114c3r0aB_



not modelled 87.6 14 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
115c3b81A_



not modelled 87.5 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, acrr family;
PDBTitle: crystal structure of predicted dna-binding transcriptional regulator2 of tetr/acrr family (np_350189.1) from clostridium acetobutylicum at3 2.10 a resolution
116c2qtqB_



not modelled 87.4 12 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of a predicted dna-binding transcriptional regulator2 (saro_1072) from novosphingobium aromaticivorans dsm at 1.85 a3 resolution
117c3qbmA_



not modelled 87.4 7 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr transcriptional regulator;
PDBTitle: crystal structure of a tetr transcriptional regulator (caur_2221) from2 chloroflexus aurantiacus j-10-fl at 1.80 a resolution
118d1pb6a1



not modelled 87.3 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
119c2hytA_



not modelled 87.2 6 PDB header:transcription
Chain: A: PDB Molecule:tetr-family transcriptional regulator;
PDBTitle: crystal structure of a tetr-family transcriptional regulator (eca1819)2 from pectobacterium atrosepticum at 1.64 a resolution
120d2g3ba1



not modelled 87.2 12 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