Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AAP5
DateThu Jan 5 11:13:26 GMT 2012
Unique Job IDfa63517e48e1413c

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3iwzB_
Top template information
PDB header:transcription
Chain: B: PDB Molecule:catabolite activation-like protein;
PDBTitle: the c-di-gmp responsive global regulator clp links cell-cell signaling2 to virulence gene expression in xanthomonas campestris
Confidence and coverage
Confidence:100.0% Coverage: 90%
187 residues ( 90% 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  MLSVVKPLQEFGKLDKCLSRYGTRFEFNNEKQVIFSSDVNNEDTFVILEGVISLRREENV
Secondary structure 
SS confidence 
Disorder  ???????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  LIGITQAPYIMGLADGLMKNDIPYKLISEGNCTGYHLPAKQTITLIEQNQLWRDAFYWLA
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  WQNRILELRDVQLIGHNSYEQIRATLLSMIDWNEELRSRIGVMNYIHQRTRISRSVVAEV
Secondary structure 
SS confidence 
Disorder 
????
?????
Disorder confidence 
 
   .........190.........200.......
Sequence  LAALRKGGYIEMNKGKLVAINRLPSEY
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 3iwz chain B

3D model

Region: 12 - 199
Aligned: 187
Modelled: 188
Confidence: 100.0%
Identity: 13%
PDB header:transcription
Chain: B: PDB Molecule:catabolite activation-like protein;
PDBTitle: the c-di-gmp responsive global regulator clp links cell-cell signaling2 to virulence gene expression in xanthomonas campestris

Phyre2

PDB 2bgc chain A

3D model

Region: 12 - 201
Aligned: 189
Modelled: 190
Confidence: 99.9%
Identity: 13%
PDB header:transcription
Chain: A: PDB Molecule:prfa;
PDBTitle: prfa-g145s, a constitutive active mutant of the2 transcriptional regulator in l.monocytogenes

Phyre2

PDB 1zyb chain A

3D model

Region: 7 - 201
Aligned: 192
Modelled: 195
Confidence: 99.9%
Identity: 12%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator, crp family;
PDBTitle: crystal structure of transcription regulator from bacteroides2 thetaiotaomicron vpi-5482 at 2.15 a resolution

Phyre2

PDB 3dv8 chain A

3D model

Region: 12 - 201
Aligned: 188
Modelled: 190
Confidence: 99.9%
Identity: 10%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of a putative transcriptional regulator of the2 crp/fnr family (eubrec_1222) from eubacterium rectale atcc 33656 at3 2.55 a resolution

Phyre2

PDB 3kcc chain A

3D model

Region: 15 - 199
Aligned: 184
Modelled: 185
Confidence: 99.9%
Identity: 13%
PDB header:transcription
Chain: A: PDB Molecule:catabolite gene activator;
PDBTitle: crystal structure of d138l mutant of catabolite gene activator protein

Phyre2

PDB 3fx3 chain A

3D model

Region: 12 - 201
Aligned: 185
Modelled: 190
Confidence: 99.9%
Identity: 12%
PDB header:camp-binding protein
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: structure of a putative camp-binding regulatory protein from2 silicibacter pomeroyi dss-3

Phyre2

PDB 3e97 chain A

3D model

Region: 12 - 201
Aligned: 189
Modelled: 190
Confidence: 99.9%
Identity: 14%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator of crp/fnr2 family (yp_604437.1) from deinococcus geothermalis dsm3 11300 at 1.86 a resolution

Phyre2

PDB 1zre chain B

3D model

Region: 15 - 199
Aligned: 184
Modelled: 185
Confidence: 99.9%
Identity: 13%
PDB header:gene regulation/dna
Chain: B: PDB Molecule:catabolite gene activator;
PDBTitle: 4 crystal structures of cap-dna with all base-pair2 substitutions at position 6, cap-[6g;17c]icap38 dna

Phyre2

PDB 3la2 chain A

3D model

Region: 25 - 202
Aligned: 177
Modelled: 178
Confidence: 99.9%
Identity: 19%
PDB header:transcription
Chain: A: PDB Molecule:global nitrogen regulator;
PDBTitle: crystal structure of ntca in complex with 2-oxoglutarate

Phyre2

PDB 3d0s chain A

3D model

Region: 15 - 201
Aligned: 186
Modelled: 187
Confidence: 99.9%
Identity: 14%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: camp receptor protein from m.tuberculosis, camp-free form

Phyre2

PDB 2oz6 chain A

3D model

Region: 7 - 201
Aligned: 190
Modelled: 195
Confidence: 99.9%
Identity: 16%
PDB header:dna binding protein
Chain: A: PDB Molecule:virulence factor regulator;
PDBTitle: crystal structure of virulence factor regulator from pseudomonas2 aeruginosa in complex with camp

Phyre2

PDB 3e6d chain A

3D model

Region: 15 - 201
Aligned: 182
Modelled: 184
Confidence: 99.9%
Identity: 12%
PDB header:transcription regulation
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: crystal structure of cprk c200s

Phyre2

PDB 3dkw chain B

3D model

Region: 12 - 202
Aligned: 190
Modelled: 191
Confidence: 99.9%
Identity: 11%
PDB header:transcription regulator
Chain: B: PDB Molecule:dnr protein;
PDBTitle: crystal structure of dnr from pseudomonas aeruginosa.

Phyre2

PDB 2gau chain A

3D model

Region: 12 - 202
Aligned: 189
Modelled: 191
Confidence: 99.9%
Identity: 16%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator, crp/fnr family from2 porphyromonas gingivalis (apc80792), structural genomics, mcsg

Phyre2

PDB 2zdb chain A

3D model

Region: 25 - 201
Aligned: 175
Modelled: 177
Confidence: 99.9%
Identity: 13%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, crp family;
PDBTitle: crystal structure of tthb099, a transcriptional regulator crp family2 from thermus thermophilus hb8

Phyre2

PDB 1ft9 chain A

3D model

Region: 18 - 201
Aligned: 176
Modelled: 184
Confidence: 99.9%
Identity: 11%
PDB header:transcription
Chain: A: PDB Molecule:carbon monoxide oxidation system transcription
PDBTitle: structure of the reduced (feii) co-sensing protein from r.2 rubrum

Phyre2

PDB 2zcw chain A

3D model

Region: 23 - 201
Aligned: 175
Modelled: 179
Confidence: 99.9%
Identity: 15%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, fnr/crp family;
PDBTitle: crystal structure of ttha1359, a transcriptional regulator,2 crp/fnr family from thermus thermophilus hb8

Phyre2

PDB 2fmy chain B

3D model

Region: 18 - 201
Aligned: 176
Modelled: 184
Confidence: 99.8%
Identity: 11%
PDB header:dna binding protein
Chain: B: PDB Molecule:carbon monoxide oxidation system transcription regulator
PDBTitle: co-dependent transcription factor cooa from carboxydothermus2 hydrogenoformans (imidazole-bound form)

Phyre2

PDB 1o5l chain A

3D model

Region: 15 - 136
Aligned: 121
Modelled: 122
Confidence: 99.6%
Identity: 16%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp family;
PDBTitle: crystal structure of transcriptional regulator (tm1171) from2 thermotoga maritima at 2.30 a resolution

Phyre2

PDB 1o5l chain A domain 1

3D model

Region: 15 - 136
Aligned: 121
Modelled: 122
Confidence: 99.6%
Identity: 16%
Fold: Double-stranded beta-helix
Superfamily: cAMP-binding domain-like
Family: cAMP-binding domain

Phyre2
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c3iwzB_
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c2bgcA_
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c1zybA_
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c3dv8A_
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c3kccA_
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c3fx3A_
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c3e97A_
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c1zreB_
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c3la2A_
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c3d0sA_
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c2oz6A_
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c3e6dA_
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c3dkwB_
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c2gauA_
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c2zdbA_
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c1ft9A_
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c2zcwA_
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c2fmyB_
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c1o5lA_
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d1o5la1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3iwzB_
100.0 13 PDB header:transcription
Chain: B: PDB Molecule:catabolite activation-like protein;
PDBTitle: the c-di-gmp responsive global regulator clp links cell-cell signaling2 to virulence gene expression in xanthomonas campestris
2c2bgcA_
99.9 13 PDB header:transcription
Chain: A: PDB Molecule:prfa;
PDBTitle: prfa-g145s, a constitutive active mutant of the2 transcriptional regulator in l.monocytogenes
3c1zybA_
99.9 12 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator, crp family;
PDBTitle: crystal structure of transcription regulator from bacteroides2 thetaiotaomicron vpi-5482 at 2.15 a resolution
4c3dv8A_
99.9 10 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of a putative transcriptional regulator of the2 crp/fnr family (eubrec_1222) from eubacterium rectale atcc 33656 at3 2.55 a resolution
5c3kccA_
99.9 13 PDB header:transcription
Chain: A: PDB Molecule:catabolite gene activator;
PDBTitle: crystal structure of d138l mutant of catabolite gene activator protein
6c3fx3A_
99.9 12 PDB header:camp-binding protein
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: structure of a putative camp-binding regulatory protein from2 silicibacter pomeroyi dss-3
7c3e97A_
99.9 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator of crp/fnr2 family (yp_604437.1) from deinococcus geothermalis dsm3 11300 at 1.86 a resolution
8c1zreB_
99.9 13 PDB header:gene regulation/dna
Chain: B: PDB Molecule:catabolite gene activator;
PDBTitle: 4 crystal structures of cap-dna with all base-pair2 substitutions at position 6, cap-[6g;17c]icap38 dna
9c3la2A_
99.9 19 PDB header:transcription
Chain: A: PDB Molecule:global nitrogen regulator;
PDBTitle: crystal structure of ntca in complex with 2-oxoglutarate
10c3d0sA_
99.9 14 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: camp receptor protein from m.tuberculosis, camp-free form
11c2oz6A_
99.9 16 PDB header:dna binding protein
Chain: A: PDB Molecule:virulence factor regulator;
PDBTitle: crystal structure of virulence factor regulator from pseudomonas2 aeruginosa in complex with camp
12c3e6dA_
99.9 12 PDB header:transcription regulation
Chain: A: PDB Molecule:cyclic nucleotide-binding protein;
PDBTitle: crystal structure of cprk c200s
13c3dkwB_
99.9 11 PDB header:transcription regulator
Chain: B: PDB Molecule:dnr protein;
PDBTitle: crystal structure of dnr from pseudomonas aeruginosa.
14c2gauA_
99.9 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp/fnr family;
PDBTitle: crystal structure of transcriptional regulator, crp/fnr family from2 porphyromonas gingivalis (apc80792), structural genomics, mcsg
15c2zdbA_
99.9 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, crp family;
PDBTitle: crystal structure of tthb099, a transcriptional regulator crp family2 from thermus thermophilus hb8
16c1ft9A_
99.9 11 PDB header:transcription
Chain: A: PDB Molecule:carbon monoxide oxidation system transcription
PDBTitle: structure of the reduced (feii) co-sensing protein from r.2 rubrum
17c2zcwA_
99.9 15 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, fnr/crp family;
PDBTitle: crystal structure of ttha1359, a transcriptional regulator,2 crp/fnr family from thermus thermophilus hb8
18c2fmyB_
99.8 11 PDB header:dna binding protein
Chain: B: PDB Molecule:carbon monoxide oxidation system transcription regulator
PDBTitle: co-dependent transcription factor cooa from carboxydothermus2 hydrogenoformans (imidazole-bound form)
19c1o5lA_
99.6 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, crp family;
PDBTitle: crystal structure of transcriptional regulator (tm1171) from2 thermotoga maritima at 2.30 a resolution
20d1o5la1
99.6 16 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
21d2gaua2
not modelled 99.6 19 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
22d2h6ca2
not modelled 99.6 10 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
23d3e5ua2
not modelled 99.6 9 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
24c3gydA_
not modelled 99.5 12 PDB header:dna binding protein
Chain: A: PDB Molecule:cyclic nucleotide-binding domain;
PDBTitle: crystal structure of a cyclic nucleotide-binding domain (mfla_1926)2 from methylobacillus flagellatus kt at 1.79 a resolution
25d1zyba2
not modelled 99.5 11 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
26d2oz6a2
not modelled 99.5 14 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
27c3dn7A_
not modelled 99.5 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cyclic nucleotide binding regulatory protein;
PDBTitle: cyclic nucleotide binding regulatory protein from cytophaga2 hutchinsonii.
28d1i5za2
not modelled 99.5 9 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
29c2pqqD_
not modelled 99.5 9 PDB header:transcription
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: structural genomics, the crystal structure of the n-terminal domain of2 a transcriptional regulator from streptomyces coelicolor a3(2)
30d1ft9a2
not modelled 99.5 6 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:CO-sensing protein CooA, N-terminal domain
31c3mdpA_
not modelled 99.4 14 PDB header:nucleotide binding protein
Chain: A: PDB Molecule:cyclic nucleotide-binding domain (cnmp-bd) protein;
PDBTitle: crystal structure of a putative cyclic nucleotide-binding protein2 (gmet_1532) from geobacter metallireducens gs-15 at 1.90 a resolution
32d1cx4a1
not modelled 99.4 9 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
33d1cx4a2
not modelled 99.4 10 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
34c2z69A_
not modelled 99.4 8 PDB header:transcription regulator
Chain: A: PDB Molecule:dnr protein;
PDBTitle: crystal structure of the sensor domain of the transcriptional2 regulator dnr from pseudomonas aeruginosa
35d2coha2
not modelled 99.4 13 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
36c2ptmA_
not modelled 99.4 12 PDB header:transport protein
Chain: A: PDB Molecule:hyperpolarization-activated (ih) channel;
PDBTitle: structure and rearrangements in the carboxy-terminal region of spih2 channels
37d1ne6a1
not modelled 99.3 8 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
38d1o7fa3
not modelled 99.3 9 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
39c1o7fA_
not modelled 99.3 9 PDB header:regulation
Chain: A: PDB Molecule:camp-dependent rap1 guanine-nucleotide exchange
PDBTitle: crystal structure of the regulatory domain of epac2
40d1ne6a2
not modelled 99.3 15 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
41c3otfA_
not modelled 99.3 15 PDB header:transport protein
Chain: A: PDB Molecule:potassium/sodium hyperpolarization-activated cyclic
PDBTitle: structural basis for the camp-dependent gating in human hcn4 channel
42c3idcB_
not modelled 99.3 9 PDB header:transferase
Chain: B: PDB Molecule:camp-dependent protein kinase type ii-beta
PDBTitle: crystal structure of (102-265)riib:c holoenzyme of camp-2 dependent protein kinase
43c3pvbB_
not modelled 99.3 7 PDB header:transferase
Chain: B: PDB Molecule:camp-dependent protein kinase type i-alpha regulatory
PDBTitle: crystal structure of (73-244)ria:c holoenzyme of camp-dependent2 protein kinase
44c3ogjD_
not modelled 99.3 11 PDB header:transferase
Chain: D: PDB Molecule:prkg1 protein;
PDBTitle: crystal structure of partial apo (92-227) of cgmp-dependent protein2 kinase
45c2byvE_
not modelled 99.3 9 PDB header:regulation
Chain: E: PDB Molecule:rap guanine nucleotide exchange factor 4;
PDBTitle: structure of the camp responsive exchange factor epac2 in2 its auto-inhibited state
46c3of1A_
not modelled 99.3 10 PDB header:transferase
Chain: A: PDB Molecule:camp-dependent protein kinase regulatory subunit;
PDBTitle: crystal structure of bcy1, the yeast regulatory subunit of pka
47d1vp6a_
not modelled 99.2 10 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
48d1q3ea_
not modelled 99.2 15 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
49c3cf6E_
not modelled 99.2 9 PDB header:signaling protein/gtp-binding protein
Chain: E: PDB Molecule:rap guanine nucleotide exchange factor (gef) 4;
PDBTitle: structure of epac2 in complex with cyclic-amp and rap
50d1wgpa_
not modelled 99.2 10 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
51d1o7fa2
not modelled 99.2 12 Fold:Double-stranded beta-helix
Superfamily:cAMP-binding domain-like
Family:cAMP-binding domain
52c3uknC_
not modelled 99.2 7 PDB header:transport protein, membrane protein
Chain: C: PDB Molecule:novel protein similar to vertebrate potassium voltage-gated
PDBTitle: structure of the c-linker/cnbhd of zelk channels in c 2 2 21 space2 group
53d1i5za1
not modelled 99.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
54d2oz6a1
not modelled 99.1 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
55c3shrA_
not modelled 99.1 12 PDB header:transferase
Chain: A: PDB Molecule:cgmp-dependent protein kinase 1;
PDBTitle: crystal structure of cgmp-dependent protein kinase reveals novel site2 of interchain communication
56c1cx4A_
not modelled 99.1 10 PDB header:signaling protein
Chain: A: PDB Molecule:camp-dependent protein kinase regulatory subunit
PDBTitle: crystal structure of a deletion mutant of the type ii beta2 regulatory subunit of camp-dependent protein kinase
57d2gaua1
not modelled 99.0 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
58d2coha1
not modelled 99.0 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
59d1ft9a1
not modelled 99.0 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
60d2h6ca1
not modelled 99.0 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
61c1rgsA_
not modelled 98.9 15 PDB header:kinase
Chain: A: PDB Molecule:camp dependent protein kinase;
PDBTitle: regulatory subunit of camp dependent protein kinase
62c2d93A_
not modelled 98.9 10 PDB header:signaling protein
Chain: A: PDB Molecule:rap guanine nucleotide exchange factor 6;
PDBTitle: solution structure of the cnmp_binding domain of human rap2 guanine nucleotide exchange factor 6
63d2bgca1
not modelled 98.9 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
64d3e5ua1
not modelled 98.8 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
65d1zyba1
not modelled 98.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like
66c3eetA_
not modelled 97.5 18 PDB header:transcription regulator
Chain: A: PDB Molecule:putative gntr-family transcriptional regulator;
PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator
67c3edpB_
not modelled 97.3 13 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:lin2111 protein;
PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262
68c2hs5A_
not modelled 97.3 14 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator gntr;
PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1
69d1hw1a1
not modelled 97.2 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
70c2du9A_
not modelled 97.2 16 PDB header:transcription
Chain: A: PDB Molecule:predicted transcriptional regulators;
PDBTitle: crystal structure of the transcriptional factor from c.glutamicum
71d2fxaa1
not modelled 97.2 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
72c3neuA_
not modelled 97.1 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin1836 protein;
PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262
73c3by6C_
not modelled 97.1 14 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
74c3ihuA_
not modelled 97.0 16 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution
75c2di3A_
not modelled 97.0 17 PDB header:transcription
Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family;
PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum
76d2hs5a1
not modelled 97.0 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
77c2w48D_
not modelled 96.9 18 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
78c3bwgA_
not modelled 96.9 17 PDB header:transcription regulator
Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk;
PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168
79c3f8mA_
not modelled 96.9 21 PDB header:transcription
Chain: A: PDB Molecule:gntr-family protein transcriptional regulator;
PDBTitle: crystal structure of phnf from mycobacterium smegmatis
80c3fmsA_
not modelled 96.9 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator
81c3ctaA_
not modelled 96.9 17 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
82d3bwga1
not modelled 96.9 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
83d1lnwa_
not modelled 96.8 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
84c3c7jA_
not modelled 96.8 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, gntr family;
PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000
85c2it0A_
not modelled 96.8 15 PDB header:transcription/dna
Chain: A: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii
86c2h09A_
not modelled 96.8 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
87c1e2xA_
not modelled 96.8 17 PDB header:transcriptional regulation
Chain: A: PDB Molecule:fatty acid metabolism regulator protein;
PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli
88c3s2wB_
not modelled 96.7 14 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1
89c2x4hA_
not modelled 96.7 18 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
90c1f5tA_
not modelled 96.7 14 PDB header:transcription/dna
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence
91d2fbha1
not modelled 96.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
92d2isya1
not modelled 96.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
93d3ctaa1
not modelled 96.6 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
94c2fxaB_
not modelled 96.6 13 PDB header:transcription
Chain: B: PDB Molecule:protease production regulatory protein hpr;
PDBTitle: structure of the protease production regulatory protein hpr from2 bacillus subtilis.
95d3broa1
not modelled 96.6 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
96d1ku9a_
not modelled 96.6 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:DNA-binding protein Mj223
97c3k0lA_
not modelled 96.6 14 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
98c3bddD_
not modelled 96.6 19 PDB header:transcription
Chain: D: PDB Molecule:regulatory protein marr;
PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution
99c3nqoB_
not modelled 96.5 19 PDB header:transcription
Chain: B: PDB Molecule:marr-family transcriptional regulator;
PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution
100c1g3wA_
not modelled 96.5 15 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
101d1g3wa1
not modelled 96.4 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
102c3g3zA_
not modelled 96.4 14 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
103d1v4ra1
not modelled 96.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
104c3hruA_
not modelled 96.4 15 PDB header:transcription
Chain: A: PDB Molecule:metalloregulator scar;
PDBTitle: crystal structure of scar with bound zn2+
105c2nyxB_
not modelled 96.4 10 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
106c3nrvC_
not modelled 96.4 11 PDB header:transcription regulator
Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family);
PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1
107c2v79B_
not modelled 96.4 14 PDB header:dna-binding protein
Chain: B: PDB Molecule:dna replication protein dnad;
PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis
108d1sfxa_
not modelled 96.3 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
109c1fx7C_
not modelled 96.3 14 PDB header:signaling protein
Chain: C: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis
110d2d1ha1
not modelled 96.3 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
111c3r0aB_
not modelled 96.2 12 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
112d1jhfa1
not modelled 96.2 25 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
113c3kp3B_
not modelled 96.2 9 PDB header:transcription regulator/antibiotic
Chain: B: PDB Molecule:transcriptional regulator tcar;
PDBTitle: staphylococcus epidermidis in complex with ampicillin
114d1z05a1
not modelled 96.2 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
115c2gxgA_
not modelled 96.2 14 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
116c3bj6B_
not modelled 96.2 16 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
117c3cjnA_
not modelled 96.2 9 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
118c2y75F_
not modelled 96.2 14 PDB header:transcription
Chain: F: PDB Molecule:hth-type transcriptional regulator cymr;
PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis
119c2rdpA_
not modelled 96.1 8 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
120d3deua1
not modelled 96.1 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators

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