Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP27434
DateThu Jan 5 11:44:01 GMT 2012
Unique Job ID795a63599a23c3a8

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3fymA_
Top template information
PDB header:dna binding protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus
Confidence and coverage
Confidence: 99.8% Coverage: 24%
80 residues ( 24% of your sequence) have been modelled with 99.8% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
228 residues ( 68%) 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.
Warning: 54% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MNTEATHDQNEALTTGARLRNAREQLGLSQQAVAERLCLKVSTVRDIEEDKAPADLASTF
Secondary structure 
SS confidence 
Disorder  ??????????????
???
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  LRGYIRSYARLVHIPEEELLPGLEKQAPLRAAKVAPMQSFSLGKRRKKRDGWLMTFTWLV
Secondary structure 
SS confidence 
Disorder 
?????????????????????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  LFVVIGLSGAWWWQDRKAQQEEITTMADQSSAELSSNSEQGQSVPLNTSTTTDPATTSTP
Secondary structure 
SS confidence 
Disorder 
???????????????????????????????????????????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  PASVDTTATNTQTPAVTAPAPAVDPQQNAVVSPSQANVDTAATPAPTAATTPDGAAPLPT
Secondary structure 
SS confidence 
Disorder  ????????????????????????????????????????????????????????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  DQAGVTTPVADPNALVMNFTADCWLEVTDATGKKLFSGMQRKDGNLNLTGQAPYKLKIGA
Secondary structure 
SS confidence 
Disorder  ?????????????
Disorder confidence 
 
   .........310.........320.........330.......
Sequence  PAAVQIQYQGKPVDLSRFIRTNQVARLTLNAEQSPAQ
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 3fym chain A

3D model

Region: 14 - 93
Aligned: 80
Modelled: 80
Confidence: 99.8%
Identity: 26%
PDB header:dna binding protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus

Phyre2

PDB 2wus chain R

3D model

Region: 15 - 95
Aligned: 81
Modelled: 81
Confidence: 99.7%
Identity: 21%
PDB header:structural protein
Chain: R: PDB Molecule:putative uncharacterized protein;
PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz

Phyre2

PDB 2bno chain A

3D model

Region: 14 - 309
Aligned: 182
Modelled: 192
Confidence: 98.9%
Identity: 15%
PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.

Phyre2

PDB 3f6w chain E

3D model

Region: 15 - 88
Aligned: 68
Modelled: 74
Confidence: 98.6%
Identity: 26%
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

Phyre2

PDB 3kxa chain D

3D model

Region: 15 - 88
Aligned: 68
Modelled: 74
Confidence: 98.6%
Identity: 19%
PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae

Phyre2

PDB 1y9q chain A

3D model

Region: 15 - 80
Aligned: 60
Modelled: 66
Confidence: 98.6%
Identity: 18%
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

Phyre2

PDB 2b5a chain A domain 1

3D model

Region: 15 - 86
Aligned: 66
Modelled: 72
Confidence: 98.5%
Identity: 23%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2

PDB 2ef8 chain A

3D model

Region: 15 - 90
Aligned: 74
Modelled: 76
Confidence: 98.5%
Identity: 23%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcription factor;
PDBTitle: crystal structure of c.ecot38is

Phyre2

PDB 3clc chain C

3D model

Region: 15 - 87
Aligned: 67
Modelled: 73
Confidence: 98.5%
Identity: 15%
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

Phyre2

PDB 1y7y chain A domain 1

3D model

Region: 15 - 80
Aligned: 60
Modelled: 66
Confidence: 98.4%
Identity: 33%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2

PDB 2ewt chain A

3D model

Region: 1 - 80
Aligned: 68
Modelled: 78
Confidence: 98.4%
Identity: 31%
PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of the dna-binding domain of bldd

Phyre2

PDB 3ivp chain D

3D model

Region: 15 - 80
Aligned: 60
Modelled: 66
Confidence: 98.4%
Identity: 18%
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.

Phyre2

PDB 1r69 chain A

3D model

Region: 14 - 81
Aligned: 61
Modelled: 68
Confidence: 98.4%
Identity: 21%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2cro chain A

3D model

Region: 13 - 80
Aligned: 61
Modelled: 68
Confidence: 98.4%
Identity: 20%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 1b0n chain A

3D model

Region: 15 - 80
Aligned: 61
Modelled: 66
Confidence: 98.4%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:protein (sinr protein);
PDBTitle: sinr protein/sini protein complex

Phyre2

PDB 1rio chain A

3D model

Region: 15 - 86
Aligned: 66
Modelled: 70
Confidence: 98.4%
Identity: 23%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 1sq8 chain A

3D model

Region: 13 - 80
Aligned: 61
Modelled: 68
Confidence: 98.4%
Identity: 28%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 3op9 chain A

3D model

Region: 14 - 80
Aligned: 61
Modelled: 67
Confidence: 98.3%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua

Phyre2

PDB 1adr chain A

3D model

Region: 13 - 81
Aligned: 63
Modelled: 69
Confidence: 98.3%
Identity: 16%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2ict chain A domain 1

3D model

Region: 15 - 82
Aligned: 62
Modelled: 68
Confidence: 98.3%
Identity: 16%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: SinR domain-like

Phyre2

PDB 2jvl chain A

3D model

Region: 1 - 75
Aligned: 69
Modelled: 69
Confidence: 97.8%
Identity: 12%
PDB header:transcription
Chain: A: PDB Molecule:trmbf1;
PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei

Phyre2

PDB 1lm8 chain V

3D model

Region: 248 - 331
Aligned: 81
Modelled: 81
Confidence: 90.7%
Identity: 14%
Fold: Prealbumin-like
Superfamily: VHL
Family: VHL

Phyre2
1
c3fymA_
2
c2wusR_
3
c2bnoA_
4
c3f6wE_
5
c3kxaD_
6
c1y9qA_
7
d2b5aa1
8
c2ef8A_
9
c3clcC_
10
d1y7ya1
11
c2ewtA_
12
c3ivpD_
13
d1r69a_
14
d2croa_
15
c1b0nA_
16
d1rioa_
17
d1sq8a_
18
c3op9A_
19
d1adra_
20
d2icta1
21
22
23
24
25
26
27
28
29
30
31
32
33
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35
36
37
38
39
40
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43
c2jvlA_
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
d1lm8v_
59
60
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3fymA_
99.8 26 PDB header:dna binding protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus
2c2wusR_
99.7 21 PDB header:structural protein
Chain: R: PDB Molecule:putative uncharacterized protein;
PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz
3c2bnoA_
98.9 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
4c3f6wE_
98.6 26 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
5c3kxaD_
98.6 19 PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae
6c1y9qA_
98.6 18 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
7d2b5aa1
98.5 23 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
8c2ef8A_
98.5 23 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcription factor;
PDBTitle: crystal structure of c.ecot38is
9c3clcC_
98.5 15 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
10d1y7ya1
98.4 33 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
11c2ewtA_
98.4 31 PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of the dna-binding domain of bldd
12c3ivpD_
98.4 18 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.
13d1r69a_
98.4 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
14d2croa_
98.4 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
15c1b0nA_
98.4 20 PDB header:transcription regulator
Chain: A: PDB Molecule:protein (sinr protein);
PDBTitle: sinr protein/sini protein complex
16d1rioa_
98.4 23 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
17d1sq8a_
98.4 28 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
18c3op9A_
98.3 20 PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua
19d1adra_
98.3 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
20d2icta1
98.3 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
21d2r1jl1
not modelled 98.3 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
22d1b0na2
not modelled 98.3 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
23c3f52A_
not modelled 98.3 18 PDB header:transcription activator
Chain: A: PDB Molecule:clp gene regulator (clgr);
PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
24c3eusB_
not modelled 98.3 26 PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding protein;
PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
25d1y9qa1
not modelled 98.2 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Probable transcriptional regulator VC1968, N-terminal domain
26d1lmb3_
not modelled 98.2 24 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
27d2ofya1
not modelled 98.2 30 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
28c3cecA_
not modelled 98.2 11 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
29d1x57a1
not modelled 98.2 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:EDF1-like
30c3dnvB_
not modelled 98.1 16 PDB header:transcription/dna
Chain: B: PDB Molecule:hth-type transcriptional regulator hipb;
PDBTitle: mdt protein
31c2xcjB_
not modelled 98.1 16 PDB header:viral protein
Chain: B: PDB Molecule:c protein;
PDBTitle: crystal structure of p2 c, the immunity repressor of2 temperate e. coli phage p2
32c3pxpA_
not modelled 98.1 20 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
33c2o38A_
not modelled 98.0 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: putative xre family transcriptional regulator
34d2o38a1
not modelled 98.0 19 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
35d1llib_
not modelled 98.0 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
36c3b7hA_
not modelled 98.0 21 PDB header:structural protein
Chain: A: PDB Molecule:prophage lp1 protein 11;
PDBTitle: crystal structure of the prophage lp1 protein 11
37c2kpjA_
not modelled 98.0 16 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
38c2ebyA_
not modelled 98.0 21 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq;
PDBTitle: crystal structure of a hypothetical protein from e. coli
39c3omtA_
not modelled 97.9 18 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.
40d2a6ca1
not modelled 97.9 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
41c3mlfC_
not modelled 97.9 15 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: putative transcriptional regulator from staphylococcus aureus.
42c3lisB_
not modelled 97.9 23 PDB header:transcription
Chain: B: PDB Molecule:csp231i c protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form)
43c2jvlA_
97.8 12 PDB header:transcription
Chain: A: PDB Molecule:trmbf1;
PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei
44c3trbA_
not modelled 97.8 16 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
45c3bs3A_
not modelled 97.8 16 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
46d1utxa_
not modelled 97.7 25 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
47c2qfcB_
not modelled 97.6 22 PDB header:transcription regulation
Chain: B: PDB Molecule:plcr protein;
PDBTitle: crystal structure of bacillus thuringiensis plcr complexed with papr
48c3t76A_
not modelled 97.4 9 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator vanug;
PDBTitle: crystal structure of transcriptional regulator vanug, form ii
49c3bdnB_
not modelled 97.4 24 PDB header:transcription/dna
Chain: B: PDB Molecule:lambda repressor;
PDBTitle: crystal structure of the lambda repressor
50d2ppxa1
not modelled 97.3 22 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
51c2ppxA_
not modelled 97.3 22 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
52c2axzC_
not modelled 97.2 16 PDB header:transcription
Chain: C: PDB Molecule:prgx;
PDBTitle: crystal structure of prgx/ccf10 complex
53c3fmyA_
not modelled 97.0 21 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)
54c2fjrB_
not modelled 96.5 18 PDB header:transcription regulator
Chain: B: PDB Molecule:repressor protein ci;
PDBTitle: crystal structure of bacteriophage 186
55c2iv1J_
not modelled 96.1 15 PDB header:lyase
Chain: J: PDB Molecule:cyanate hydratase;
PDBTitle: site directed mutagenesis of key residues involved in the2 catalytic mechanism of cyanase
56d1dwka1
not modelled 96.0 12 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Cyanase N-terminal domain
57c3gn5B_
not modelled 93.7 18 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)
58d1lm8v_
90.7 14 Fold:Prealbumin-like
Superfamily:VHL
Family:VHL
59c2k9qB_
not modelled 84.9 20 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: solution nmr structure of hth_xre family transcriptional2 regulator bt_p548217 from bacteroides thetaiotaomicron.3 northeast structural genomics consortium target btr244.
60c3r1fO_
not modelled 81.6 12 PDB header:transcription
Chain: O: PDB Molecule:esx-1 secretion-associated regulator espr;
PDBTitle: crystal structure of a key regulator of virulence in mycobacterium2 tuberculosis
61d1nera_
not modelled 80.8 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
62c2auwB_
not modelled 80.2 16 PDB header:unknown function
Chain: B: PDB Molecule:hypothetical protein ne0471;
PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718
63d1a9xa1
not modelled 80.0 27 Fold:Carbamoyl phosphate synthetase, large subunit connection domain
Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain
Family:Carbamoyl phosphate synthetase, large subunit connection domain
64c2krfB_
not modelled 79.2 16 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein coma;
PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a
65d1p4wa_
not modelled 76.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
66c1m6vE_
not modelled 76.7 24 PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
67d1ttya_
not modelled 71.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
68d1uxca_
not modelled 71.2 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
69d1fsea_
not modelled 68.6 14 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)
70d1ku7a_
not modelled 68.5 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
71d1r71a_
not modelled 67.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
72c3k2zA_
not modelled 65.6 16 PDB header:hydrolase
Chain: A: PDB Molecule:lexa repressor;
PDBTitle: crystal structure of a lexa protein from thermotoga maritima
73c1zgwA_
not modelled 65.2 9 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
74c1x3uA_
not modelled 64.0 14 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
75c2jmlA_
not modelled 62.2 12 PDB header:transcription
Chain: A: PDB Molecule:dna binding domain/transcriptional regulator;
PDBTitle: solution structure of the n-terminal domain of cara repressor
76d1uxda_
not modelled 61.4 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
77d2oyza1
not modelled 58.6 5 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:VPA0057-like
78d1efaa1
not modelled 58.2 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
79c3eo6B_
not modelled 58.2 7 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein of unknown function (duf1255);
PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution
80c3qacA_
not modelled 57.7 3 PDB header:plant protein
Chain: A: PDB Molecule:11s globulin seed storage protein;
PDBTitle: structure of amaranth 11s proglobulin seed storage protein from2 amaranthus hypochondriacus l.
81c3kscD_
not modelled 55.7 14 PDB header:plant protein
Chain: D: PDB Molecule:lega class;
PDBTitle: crystal structure of pea prolegumin, an 11s seed globulin2 from pisum sativum l.
82c3hqxA_
not modelled 54.8 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0345 protein aciad0356;
PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1
83c1fxzC_
not modelled 54.6 10 PDB header:plant protein
Chain: C: PDB Molecule:glycinin g1;
PDBTitle: crystal structure of soybean proglycinin a1ab1b homotrimer
84d2hsga1
not modelled 53.3 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
85d1tg7a1
not modelled 52.3 16 Fold:Beta-galactosidase LacA, domain 3
Superfamily:Beta-galactosidase LacA, domain 3
Family:Beta-galactosidase LacA, domain 3
86c1zljE_
not modelled 52.1 22 PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
87c1l9uH_
not modelled 51.4 12 PDB header:transcription
Chain: H: PDB Molecule:sigma factor siga;
PDBTitle: thermus aquaticus rna polymerase holoenzyme at 4 a2 resolution
88c3oepA_
not modelled 50.8 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative uncharacterized protein ttha0988;
PDBTitle: crystal structure of ttha0988 in space group p43212
89c3c3vA_
not modelled 47.9 8 PDB header:allergen
Chain: A: PDB Molecule:arachin arah3 isoform;
PDBTitle: crystal structure of peanut major allergen ara h 3
90c3t72o_
not modelled 47.4 13 PDB header:transcription/dna
Chain: O: PDB Molecule:pho box dna (strand 1);
PDBTitle: phob(e)-sigma70(4)-(rnap-betha-flap-tip-helix)-dna transcription2 activation sub-complex
91c3kglB_
not modelled 46.2 15 PDB header:plant protein
Chain: B: PDB Molecule:cruciferin;
PDBTitle: crystal structure of procruciferin, 11s globulin from2 brassica napus
92c2jpcA_
not modelled 46.1 16 PDB header:dna binding protein
Chain: A: PDB Molecule:ssrb;
PDBTitle: ssrb dna binding protein
93d2p7vb1
not modelled 46.0 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
94d1l3la1
not modelled 45.9 11 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)
95c2q0oA_
not modelled 44.6 12 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
96c2e9qA_
not modelled 44.6 14 PDB header:plant protein
Chain: A: PDB Molecule:11s globulin subunit beta;
PDBTitle: recombinant pro-11s globulin of pumpkin
97c3ehkC_
not modelled 43.6 7 PDB header:plant protein
Chain: C: PDB Molecule:prunin;
PDBTitle: crystal structure of pru du amandin, an allergenic protein2 from prunus dulcis
98c3cloC_
not modelled 42.4 22 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
99c3bhpA_
not modelled 42.2 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0291 protein ynzc;
PDBTitle: crystal structure of upf0291 protein ynzc from bacillus2 subtilis at resolution 2.0 a. northeast structural3 genomics consortium target sr384
100d1a04a1
not modelled 41.6 20 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)
101d1ku3a_
not modelled 41.2 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family:Sigma4 domain
102c3omdB_
not modelled 41.0 7 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of unknown function protein from leptospirillum2 rubarum
103c1nzeA_
not modelled 40.4 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxygen-evolving enhancer protein 3;
PDBTitle: crystal structure of psbq polypeptide of photosystem ii2 from higher plants
104d1nzea_
not modelled 40.4 15 Fold:Four-helical up-and-down bundle
Superfamily:Oxygen-evolving enhancer protein 3,
Family:Oxygen-evolving enhancer protein 3,
105d1lcda_
not modelled 39.8 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
106c2b9sA_
not modelled 39.6 24 PDB header:isomerase/dna
Chain: A: PDB Molecule:topoisomerase i-like protein;
PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex
107c1c9bI_
not modelled 39.4 9 PDB header:transcription/dna
Chain: I: PDB Molecule:general transcription factor iib;
PDBTitle: crystal structure of a human tbp core domain-human tfiib2 core domain complex bound to an extended, modified3 adenoviral major late promoter (admlp)
108d1yioa1
not modelled 39.2 16 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)
109d2bnma1
not modelled 39.2 29 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
110d1fxza2
not modelled 39.1 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
111d1bl0a1
not modelled 38.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
112c3l1pA_
not modelled 38.2 20 PDB header:transcription/dna
Chain: A: PDB Molecule:pou domain, class 5, transcription factor 1;
PDBTitle: pou protein:dna complex
113d2bjca1
not modelled 36.5 18 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
114d1k4ta3
not modelled 36.2 41 Fold:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Superfamily:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Family:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
115c3lsgD_
not modelled 35.6 13 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
116c2jvdA_
not modelled 35.0 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0291 protein ynzc;
PDBTitle: solution nmr structure of the folded n-terminal fragment of2 upf0291 protein ynzc from bacillus subtilis. northeast3 structural genomics target sr384-1-46
117c3qp5C_
not modelled 34.9 15 PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
118c3mklB_
not modelled 34.8 10 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
119c1nh3A_
not modelled 34.0 41 PDB header:isomerase/dna
Chain: A: PDB Molecule:dna topoisomerase i;
PDBTitle: human topoisomerase i ara-c complex
120d1e3oc2
not modelled 33.9 24 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:POU-specific 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

Transmembrane helix prediction 

Transmembrane helices have been predicted in your sequence to adopt the topology shown below


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
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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