Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP06134
DateThu Jan 5 10:59:04 GMT 2012
Unique Job IDfcd13a2dd1ad765b

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1sfeA_
Top template information
PDB header:dna-binding protein
Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase;
PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli
Confidence and coverage
Confidence:100.0% Coverage: 47%
165 residues ( 47% 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.
350 residues ( 99%) 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  MKKATCLTDDQRWQSVLARDPNADGEFVFAVRTTGIFCRPSCRARHALRENVSFYANASE
Secondary structure 



































SS confidence 



























































Disorder  ????????



































?














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


?





?????????


















?
?


















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





















SS confidence 



























































Disorder 






















???????





?

?
?














???
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   .........190.........200.........210.........220.........230.........240
Sequence  RHGGENLAVRYALADCELGRCLVAESERGICAILLGDDDATLISELQQMFPAADNAPADL
Secondary structure 



























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Disorder  ????























































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   .........250.........260.........270.........280.........290.........300
Sequence  MFQQHVREVIASLNQRDTPLTLPLDIRGTAFQQQVWQALRTIPCGETVSYQQLANAIGKP
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Disorder 


























































?
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   .........310.........320.........330.........340.........350....
Sequence  KAVRAVASACAANKLAIIIPCHRVVRGDGTLSGYRWGVSRKAQLLRREAENEER
Secondary structure 























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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 1sfe chain A

3D model

Region: 187 - 351
Aligned: 165
Modelled: 165
Confidence: 100.0%
Identity: 99%
PDB header:dna-binding protein
Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase;
PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli

Phyre2

PDB 1wrj chain A

3D model

Region: 188 - 352
Aligned: 149
Modelled: 152
Confidence: 100.0%
Identity: 30%
PDB header:transferase
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: crystal structure of o6-methylguanine methyltransferase2 from sulfolobus tokodaii

Phyre2

PDB 1zgw chain A

3D model

Region: 1 - 139
Aligned: 138
Modelled: 139
Confidence: 100.0%
Identity: 98%
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 1t39 chain A

3D model

Region: 189 - 349
Aligned: 140
Modelled: 140
Confidence: 100.0%
Identity: 34%
PDB header:transferase/dna
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: human o6-alkylguanine-dna alkyltransferase covalently2 crosslinked to dna

Phyre2

PDB 1mgt chain A

3D model

Region: 201 - 349
Aligned: 146
Modelled: 149
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: A: PDB Molecule:protein (o6-methylguanine-dna methyltransferase);
PDBTitle: crystal structure of o6-methylguanine-dna methyltransferase from2 hyperthermophilic archaeon pyrococcus kodakaraensis strain kod1

Phyre2

PDB 2g7h chain A

3D model

Region: 193 - 354
Aligned: 159
Modelled: 162
Confidence: 100.0%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: structure of an o6-methylguanine dna methyltransferase from2 methanococcus jannaschii (mj1529)

Phyre2

PDB 1eyf chain A

3D model

Region: 1 - 92
Aligned: 92
Modelled: 92
Confidence: 100.0%
Identity: 97%
Fold: Ada DNA repair protein, N-terminal domain (N-Ada 10)
Superfamily: Ada DNA repair protein, N-terminal domain (N-Ada 10)
Family: Ada DNA repair protein, N-terminal domain (N-Ada 10)

Phyre2

PDB 1sfe chain A domain 1

3D model

Region: 268 - 351
Aligned: 84
Modelled: 84
Confidence: 100.0%
Identity: 98%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain

Phyre2

PDB 1qnt chain A domain 1

3D model

Region: 271 - 352
Aligned: 82
Modelled: 82
Confidence: 100.0%
Identity: 44%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain

Phyre2

PDB 3gx4 chain X

3D model

Region: 266 - 354
Aligned: 89
Modelled: 89
Confidence: 100.0%
Identity: 28%
PDB header:dna binding protein/dna
Chain: X: PDB Molecule:alkyltransferase-like protein 1;
PDBTitle: crystal structure analysis of s. pombe atl in complex with dna

Phyre2

PDB 2kim chain A

3D model

Region: 269 - 354
Aligned: 86
Modelled: 86
Confidence: 99.9%
Identity: 24%
PDB header:transferase
Chain: A: PDB Molecule:o6-methylguanine-dna methyltransferase;
PDBTitle: 1.7-mm microcryoprobe solution nmr structure of an o6-2 methylguanine dna methyltransferase family protein from3 vibrio parahaemolyticus. northeast structural genomics4 consortium target vpr247.

Phyre2

PDB 1mgt chain A domain 1

3D model

Region: 269 - 349
Aligned: 78
Modelled: 81
Confidence: 99.9%
Identity: 37%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain

Phyre2

PDB 3gbg chain A

3D model

Region: 73 - 187
Aligned: 114
Modelled: 115
Confidence: 99.9%
Identity: 11%
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395

Phyre2

PDB 1d5y chain D

3D model

Region: 84 - 190
Aligned: 107
Modelled: 107
Confidence: 99.9%
Identity: 23%
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 2k9s chain A

3D model

Region: 85 - 185
Aligned: 101
Modelled: 101
Confidence: 99.9%
Identity: 24%
PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac

Phyre2

PDB 3oio chain A

3D model

Region: 85 - 183
Aligned: 99
Modelled: 99
Confidence: 99.9%
Identity: 27%
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 3oou chain A

3D model

Region: 86 - 183
Aligned: 98
Modelled: 98
Confidence: 99.9%
Identity: 18%
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 1bl0 chain A

3D model

Region: 86 - 191
Aligned: 106
Modelled: 106
Confidence: 99.9%
Identity: 20%
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: 85 - 185
Aligned: 101
Modelled: 101
Confidence: 99.8%
Identity: 19%
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 3mkl chain B

3D model

Region: 76 - 182
Aligned: 105
Modelled: 107
Confidence: 99.8%
Identity: 13%
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
1

c1sfeA_
2

c1wrjA_
3

c1zgwA_
4

c1t39A_
5

c1mgtA_
6

c2g7hA_
7

d1eyfa_
8

d1sfea1
9

d1qnta1
10

c3gx4X_
11

c2kimA_
12

d1mgta1
13

c3gbgA_
14

c1d5yD_
15

c2k9sA_
16

c3oioA_
17

c3oouA_
18

c1bl0A_
19

c3mn2B_
20

c3mklB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1sfeA_



100.0 99 PDB header:dna-binding protein
Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase;
PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli
2c1wrjA_



100.0 30 PDB header:transferase
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: crystal structure of o6-methylguanine methyltransferase2 from sulfolobus tokodaii
3c1zgwA_



100.0 98 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
4c1t39A_



100.0 34 PDB header:transferase/dna
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: human o6-alkylguanine-dna alkyltransferase covalently2 crosslinked to dna
5c1mgtA_



100.0 27 PDB header:transferase
Chain: A: PDB Molecule:protein (o6-methylguanine-dna methyltransferase);
PDBTitle: crystal structure of o6-methylguanine-dna methyltransferase from2 hyperthermophilic archaeon pyrococcus kodakaraensis strain kod1
6c2g7hA_



100.0 20 PDB header:transferase
Chain: A: PDB Molecule:methylated-dna--protein-cysteine
PDBTitle: structure of an o6-methylguanine dna methyltransferase from2 methanococcus jannaschii (mj1529)
7d1eyfa_



100.0 97 Fold:Ada DNA repair protein, N-terminal domain (N-Ada 10)
Superfamily:Ada DNA repair protein, N-terminal domain (N-Ada 10)
Family:Ada DNA repair protein, N-terminal domain (N-Ada 10)
8d1sfea1



100.0 98 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
9d1qnta1



100.0 44 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
10c3gx4X_



100.0 28 PDB header:dna binding protein/dna
Chain: X: PDB Molecule:alkyltransferase-like protein 1;
PDBTitle: crystal structure analysis of s. pombe atl in complex with dna
11c2kimA_



99.9 24 PDB header:transferase
Chain: A: PDB Molecule:o6-methylguanine-dna methyltransferase;
PDBTitle: 1.7-mm microcryoprobe solution nmr structure of an o6-2 methylguanine dna methyltransferase family protein from3 vibrio parahaemolyticus. northeast structural genomics4 consortium target vpr247.
12d1mgta1



99.9 37 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain
13c3gbgA_



99.9 11 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
14c1d5yD_



99.9 23 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
15c2k9sA_



99.9 24 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
16c3oioA_



99.9 27 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
17c3oouA_



99.9 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
18c1bl0A_



99.9 20 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
19c3mn2B_



99.8 19 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
20c3mklB_



99.8 13 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
21d1sfea2



not modelled 99.7 100 Fold:Ribonuclease H-like motif
Superfamily:Methylated DNA-protein cysteine methyltransferase domain
Family:Methylated DNA-protein cysteine methyltransferase domain
22c3lsgD_



not modelled 99.7 17 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
23d1d5ya2



not modelled 99.2 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
24d1bl0a2



not modelled 99.2 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
25d1d5ya1



not modelled 98.5 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
26d1bl0a1



not modelled 98.5 28 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
27d1qnta2



not modelled 97.5 22 Fold:Ribonuclease H-like motif
Superfamily:Methylated DNA-protein cysteine methyltransferase domain
Family:Methylated DNA-protein cysteine methyltransferase domain
28d1biaa1



not modelled 90.8 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
29d1j5ya1



not modelled 90.7 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
30d2hsga1



not modelled 90.5 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
31c3eusB_



not modelled 89.8 9 PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding protein;
PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
32d1mkma1



not modelled 89.5 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
33d1qpza1



not modelled 88.9 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
34d2cg4a1



not modelled 88.2 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
35d1efaa1



not modelled 87.8 24 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
36d2icta1



not modelled 87.7 27 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
37c1bdhA_



not modelled 86.4 12 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
38c1mkmA_



not modelled 86.4 15 PDB header:transcription
Chain: A: PDB Molecule:iclr transcriptional regulator;
PDBTitle: crystal structure of the thermotoga maritima iclr
39d1lcda_



not modelled 86.4 24 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
40d2cyya1



not modelled 86.3 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
41d1i1ga1



not modelled 86.1 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
42c2vbzA_



not modelled 86.0 20 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
43c3h5tA_



not modelled 85.9 22 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
44c2bnoA_



not modelled 85.8 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
45d2cfxa1



not modelled 85.8 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
46c2l4aA_



not modelled 85.6 14 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
47d2bjca1



not modelled 85.4 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
48d1xd7a_



not modelled 85.1 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
49c2g7uB_



not modelled 84.9 18 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1
50c2xroE_



not modelled 84.8 18 PDB header:dna-binding protein/dna
Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv;
PDBTitle: crystal structure of ttgv in complex with its dna operator
51c3clcC_



not modelled 84.8 17 PDB header:transcription regulator/dna
Chain: C: PDB Molecule:regulatory protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator
52d1y7ya1



not modelled 84.5 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
53c2e1cA_



not modelled 84.3 9 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
54d1sq8a_



not modelled 84.2 17 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
55d1sgma1



not modelled 84.1 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
56d2croa_



not modelled 83.4 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
57c2cg4B_



not modelled 83.3 20 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
58c1i1gA_



not modelled 83.3 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
59c1zvvA_



not modelled 82.9 19 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
60d2b5aa1



not modelled 82.9 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
61c2ia2D_



not modelled 82.8 15 PDB header:transcription
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1
62c1y9qA_



not modelled 82.2 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, hth_3 family;
PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae
63c2e7xA_



not modelled 81.9 14 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
64c2lcvA_



not modelled 81.3 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
65c2cfxD_



not modelled 81.3 11 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
66c2dbbA_



not modelled 81.3 17 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
67c3i4pA_



not modelled 81.2 20 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
68d1llib_



not modelled 81.1 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
69c1sgmA_



not modelled 81.0 13 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator yxaf;
PDBTitle: crystal structure of hypothetical protein yxaf
70c3r4kD_



not modelled 80.8 13 PDB header:dna binding protein
Chain: D: PDB Molecule:transcriptional regulator, iclr family;
PDBTitle: crystal structure of a putative iclr transcriptional regulator2 (tm1040_3717) from silicibacter sp. tm1040 at 2.46 a resolution
71d1y9qa1



not modelled 80.7 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Probable transcriptional regulator VC1968, N-terminal domain
72c3f6wE_



not modelled 80.6 11 PDB header:dna binding protein
Chain: E: PDB Molecule:xre-family like protein;
PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000
73c3f52A_



not modelled 80.3 21 PDB header:transcription activator
Chain: A: PDB Molecule:clp gene regulator (clgr);
PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
74c2ia0A_



not modelled 80.2 23 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)
75d1rioa_



not modelled 80.2 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
76c2p6tH_



not modelled 79.9 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
77c2dg7A_



not modelled 79.7 16 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)
78c2wgbB_



not modelled 79.7 16 PDB header:transcription
Chain: B: PDB Molecule:tetr family transcriptional repressor lfrr;
PDBTitle: crystal structure of the tetr-like transcriptional2 regulator lfrr from mycobacterium smegmatis
79d1lmb3_



not modelled 79.6 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
80c2l8nA_



not modelled 79.4 12 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional repressor cytr;
PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna
81d2i10a1



not modelled 79.3 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
82d1uxca_



not modelled 79.2 7 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
83c3mkyP_



not modelled 78.9 19 PDB header:dna binding protein/dna
Chain: P: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form
84c3iuvA_



not modelled 78.8 17 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
85c3bs3A_



not modelled 78.5 15 PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis
86c3op9A_



not modelled 78.5 8 PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua
87d1z05a1



not modelled 78.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
88d1hlva1



not modelled 78.3 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
89d2fq4a1



not modelled 78.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
90c2oerA_



not modelled 77.9 16 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional regulator;
PDBTitle: probable transcriptional regulator from pseudomonas2 aeruginosa
91d1t56a1



not modelled 77.8 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
92d1jt6a1



not modelled 77.7 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
93d2g7ga1



not modelled 77.6 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
94c2x4hA_



not modelled 77.6 7 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
95c2ebyA_



not modelled 77.3 8 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq;
PDBTitle: crystal structure of a hypothetical protein from e. coli
96d2jn6a1



not modelled 77.3 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Cgl2762-like
97c3kjxD_



not modelled 76.9 18 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
98c3omtA_



not modelled 76.6 9 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.
99d2g3ba1



not modelled 76.5 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
100d1v7ba1



not modelled 76.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
101d1adra_



not modelled 76.1 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
102d1vi0a1



not modelled 75.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
103c2i10A_



not modelled 75.7 15 PDB header:transcription
Chain: A: PDB Molecule:putative tetr transcriptional regulator;
PDBTitle: putative tetr transcriptional regulator from rhodococcus sp. rha1
104c2guhA_



not modelled 75.7 21 PDB header:transcription
Chain: A: PDB Molecule:putative tetr-family transcriptional regulator;
PDBTitle: crystal structure of the putative tetr-family transcriptional2 regulator from rhodococcus sp. rha1
105d2gena1



not modelled 75.7 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
106c1jumB_



not modelled 75.6 17 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
107d1umqa_



not modelled 75.5 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
108c1umqA_



not modelled 75.5 10 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
109c3hosA_



not modelled 75.5 17 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
110c2g7gA_



not modelled 75.4 13 PDB header:transcription
Chain: A: PDB Molecule:rha04620, putative transcriptional regulator;
PDBTitle: the crystal structure of the putative transcriptional regulator2 rha04620 from rhodococcus sp. rha1
111d1r69a_



not modelled 75.3 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
112c2f07A_



not modelled 75.2 4 PDB header:transcription
Chain: A: PDB Molecule:yvdt;
PDBTitle: crystal structure of yvdt from bacillus subtilis
113d2fx0a1



not modelled 75.2 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
114c3ivpD_



not modelled 75.1 9 PDB header:dna binding protein
Chain: D: PDB Molecule:putative transposon-related dna-binding protein;
PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.
115c3ppbB_



not modelled 74.9 12 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
116d2o7ta1



not modelled 74.6 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
117c3mkzU_



not modelled 74.6 19 PDB header:dna-binding protein/dna
Chain: U: PDB Molecule:protein sopb;
PDBTitle: structure of sopb(155-272)-18mer complex, p21 form
118c1hlvA_



not modelled 74.5 14 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
119d2vkea1



not modelled 74.5 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
120c3b6aC_



not modelled 74.4 17 PDB header:transcription
Chain: C: PDB Molecule:actr protein;
PDBTitle: crystal structure of the streptomyces coelicolor tetr2 family protein actr in complex with actinorhodin

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