Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39410
DateThu Jan 5 12:00:47 GMT 2012
Unique Job IDdaa35e288fb3a8a2

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3dntB_
Top template information
PDB header:transferase
Chain: B: PDB Molecule:protein hipa;
PDBTitle: structures of mdt proteins
Confidence and coverage
Confidence:100.0% Coverage: 73%
323 residues ( 73% 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.
385 residues ( 87%) 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  MSELTDLLLQGPRSAPELRQRLAISQATFSRLVAREDRVIRFGKARATRYALLRPYRGIE
Secondary structure 
SS confidence 
Disorder  ???
??????
????
??????
?
?
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  RIPVWRVDDTGKAHKFADIRLCWPQGSCLVTGADGDEQWFDGLPWYLTDLRPQGFLGRAW
Secondary structure 
SS confidence 
Disorder 
?
????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  GRKLAAQLNLTDDIRLWQEEDVLYALTVFNGEYTGGWLVGEGNYQRWITAQHPAEIPLDQ
Secondary structure 
SS confidence 
Disorder 
???????
???????????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  KLTHYEQLASDALAGEIVGSSAGGEQPKFTYYAQTPSGNKHVLVKFTVPQQTAVSQRWGD
Secondary structure 
SS confidence 
Disorder 
??
??????????
???????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  LLIAESIAAQILRDGGIHAIESTVLVTSNRQVFLEAERFDCKGNDGRLPIVSLEAVQSEF
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  ISSPGSWPQAMRRLCEQQLVTHQSVAQTEVIWAFGRLIANSDMHAGNLSFYLSEPPFALT
Secondary structure 
SS confidence 
Disorder  ?????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  PVYDMLPMVYAPNSAGMLRDAAIEVKFDLNVSKSAWLTAIPLAQQFWQTVARDPRISEAF
Secondary structure 
SS confidence 
Disorder 
?
???
?
?
????
????
?
Disorder confidence 
 
   .........430.........440...
Sequence  RHIAQEMPEKIRQIEEKVARMGG
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 3dnt chain B

3D model

Region: 100 - 439
Aligned: 323
Modelled: 340
Confidence: 100.0%
Identity: 16%
PDB header:transferase
Chain: B: PDB Molecule:protein hipa;
PDBTitle: structures of mdt proteins

Phyre2

PDB 3akj chain B

3D model

Region: 207 - 372
Aligned: 150
Modelled: 166
Confidence: 99.9%
Identity: 19%
PDB header:transferase
Chain: B: PDB Molecule:ctka;
PDBTitle: crystal structure of a helicobacter pylori proinflammatory kinase ctka

Phyre2

PDB 2oqg chain A

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.7%
Identity: 26%
PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1

Phyre2

PDB 2jsc chain B

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.7%
Identity: 23%
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis

Phyre2

PDB 2zkz chain C

3D model

Region: 4 - 55
Aligned: 52
Modelled: 52
Confidence: 96.6%
Identity: 19%
PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis

Phyre2

PDB 1r1u chain A

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.5%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ArsR-like transcriptional regulators

Phyre2

PDB 1r1t chain A

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.4%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ArsR-like transcriptional regulators

Phyre2

PDB 1u2w chain A domain 1

3D model

Region: 4 - 55
Aligned: 48
Modelled: 52
Confidence: 96.3%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ArsR-like transcriptional regulators

Phyre2

PDB 3pqk chain D

3D model

Region: 3 - 55
Aligned: 53
Modelled: 52
Confidence: 96.3%
Identity: 26%
PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa

Phyre2

PDB 1r22 chain B

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.3%
Identity: 23%
PDB header:transcription repressor
Chain: B: PDB Molecule:transcriptional repressor smtb;
PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form

Phyre2

PDB 3f6v chain A

3D model

Region: 3 - 54
Aligned: 52
Modelled: 52
Confidence: 96.2%
Identity: 21%
PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance

Phyre2

PDB 2d1h chain A domain 1

3D model

Region: 4 - 50
Aligned: 47
Modelled: 0
Confidence: 96.2%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: TrmB-like

Phyre2

PDB 3f6o chain B

3D model

Region: 3 - 54
Aligned: 52
Modelled: 52
Confidence: 96.2%
Identity: 15%
PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566

Phyre2

PDB 1z6r chain C

3D model

Region: 4 - 73
Aligned: 70
Modelled: 70
Confidence: 96.1%
Identity: 19%
PDB header:transcription
Chain: C: PDB Molecule:mlc protein;
PDBTitle: crystal structure of mlc from escherichia coli

Phyre2

PDB 3jth chain A

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 96.1%
Identity: 26%
PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6

Phyre2

PDB 2hoe chain A

3D model

Region: 1 - 73
Aligned: 73
Modelled: 70
Confidence: 95.9%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:n-acetylglucosamine kinase;
PDBTitle: crystal structure of n-acetylglucosamine kinase (tm1224) from2 thermotoga maritima at 2.46 a resolution

Phyre2

PDB 3cuo chain B

3D model

Region: 4 - 55
Aligned: 52
Modelled: 52
Confidence: 95.9%
Identity: 23%
PDB header:transcription regulator
Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav;
PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli

Phyre2

PDB 1z05 chain A domain 1

3D model

Region: 4 - 43
Aligned: 40
Modelled: 40
Confidence: 95.7%
Identity: 13%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ROK associated domain

Phyre2

PDB 2kko chain B

3D model

Region: 3 - 55
Aligned: 53
Modelled: 53
Confidence: 95.7%
Identity: 21%
PDB header:dna binding protein
Chain: B: PDB Molecule:possible transcriptional regulatory protein
PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e.

Phyre2

PDB 1z05 chain A

3D model

Region: 4 - 71
Aligned: 60
Modelled: 68
Confidence: 95.3%
Identity: 12%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, rok family;
PDBTitle: crystal structure of the rok family transcriptional regulator, homolog2 of e.coli mlc protein.

Phyre2
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c3dntB_
2
c3akjB_
3
c2oqgA_
4
c2jscB_
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c2zkzC_
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d1r1ua_
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d1r1ta_
8
d1u2wa1
9
c3pqkD_
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c1r22B_
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c3f6vA_
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d2d1ha1
13
c3f6oB_
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c1z6rC_
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c3jthA_
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c2hoeA_
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c3cuoB_
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d1z05a1
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c2kkoB_
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c1z05A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3dntB_
100.0 16 PDB header:transferase
Chain: B: PDB Molecule:protein hipa;
PDBTitle: structures of mdt proteins
2c3akjB_
99.9 19 PDB header:transferase
Chain: B: PDB Molecule:ctka;
PDBTitle: crystal structure of a helicobacter pylori proinflammatory kinase ctka
3c2oqgA_
96.7 26 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
4c2jscB_
96.7 23 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
5c2zkzC_
96.6 19 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
6d1r1ua_
96.5 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
7d1r1ta_
96.4 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
8d1u2wa1
96.3 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
9c3pqkD_
96.3 26 PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
10c1r22B_
96.3 23 PDB header:transcription repressor
Chain: B: PDB Molecule:transcriptional repressor smtb;
PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form
11c3f6vA_
96.2 21 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
12d2d1ha1
96.2 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
13c3f6oB_
96.2 15 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
14c1z6rC_
96.1 19 PDB header:transcription
Chain: C: PDB Molecule:mlc protein;
PDBTitle: crystal structure of mlc from escherichia coli
15c3jthA_
96.1 26 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
16c2hoeA_
95.9 14 PDB header:transferase
Chain: A: PDB Molecule:n-acetylglucosamine kinase;
PDBTitle: crystal structure of n-acetylglucosamine kinase (tm1224) from2 thermotoga maritima at 2.46 a resolution
17c3cuoB_
95.9 23 PDB header:transcription regulator
Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav;
PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli
18d1z05a1
95.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
19c2kkoB_
95.7 21 PDB header:dna binding protein
Chain: B: PDB Molecule:possible transcriptional regulatory protein
PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e.
20c1z05A_
95.3 12 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, rok family;
PDBTitle: crystal structure of the rok family transcriptional regulator, homolog2 of e.coli mlc protein.
21c2w48D_
not modelled 94.7 22 PDB header:transcription
Chain: D: PDB Molecule:sorbitol operon regulator;
PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
22d2p4wa1
not modelled 94.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
23d1z6ra1
not modelled 94.4 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
24d1ub9a_
not modelled 94.1 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
25d2cg4a1
not modelled 93.8 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
26c3ctaA_
not modelled 93.7 17 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
27d1biaa1
not modelled 93.5 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
28d1b4aa1
not modelled 93.2 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
29c2qufB_
not modelled 93.2 15 PDB header:transcription
Chain: B: PDB Molecule:transcription factor pf0095;
PDBTitle: crystal structure of transcription factor axxa-pf0095 from pyrococcus2 furiosus
30d1cjaa_
not modelled 93.0 23 Fold:Protein kinase-like (PK-like)
Superfamily:Protein kinase-like (PK-like)
Family:Actin-fragmin kinase, catalytic domain
31c2dbbA_
not modelled 92.7 16 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
32c2ia0A_
not modelled 92.4 19 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)
33d3ctaa1
not modelled 92.4 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
34d2etha1
not modelled 92.4 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
35c2nyxB_
not modelled 92.3 24 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
36d2ev0a1
not modelled 92.3 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
37d1i1ga1
not modelled 92.3 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
38d2p5ka1
not modelled 92.3 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
39d1ulya_
not modelled 92.1 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Hypothetical protein PH1932
40d2cfxa1
not modelled 91.9 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
41c3k0lA_
not modelled 91.9 14 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
42c2bnoA_
not modelled 91.9 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
43c1j5yA_
not modelled 91.8 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, biotin repressor family;
PDBTitle: crystal structure of transcriptional regulator (tm1602) from2 thermotoga maritima at 2.3 a resolution
44d1g3wa1
not modelled 91.8 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
45c2cfxD_
not modelled 91.7 19 PDB header:transcription
Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc;
PDBTitle: structure of b.subtilis lrpc
46d1j5ya1
not modelled 91.7 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
47d2cyya1
not modelled 91.5 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
48d1ku9a_
not modelled 91.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:DNA-binding protein Mj223
49c1y9qA_
not modelled 91.5 21 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
50c3bpxB_
not modelled 91.5 14 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of marr
51c2e7xA_
not modelled 91.5 23 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
52c3frwF_
not modelled 91.4 29 PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:putative trp repressor protein;
PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum
53d2isya1
not modelled 91.4 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
54c1b4aA_
not modelled 91.4 24 PDB header:repressor
Chain: A: PDB Molecule:arginine repressor;
PDBTitle: structure of the arginine repressor from bacillus stearothermophilus
55c2vbzA_
not modelled 91.4 23 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
56c2rdpA_
not modelled 91.3 29 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
57c2cg4B_
not modelled 91.3 23 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc
58d2a61a1
not modelled 91.1 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
59c3g3zA_
not modelled 91.1 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
60c1i1gA_
not modelled 91.1 23 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator lrpa;
PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus
61c3bddD_
not modelled 91.1 33 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
62d1sfxa_
not modelled 91.0 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
63c1bdhA_
not modelled 90.9 21 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
64c2nnnB_
not modelled 90.9 24 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
65c3i4pA_
not modelled 90.8 16 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, asnc family;
PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens
66c2h09A_
not modelled 90.7 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
67c2x4hA_
not modelled 90.6 13 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
68c2o38A_
not modelled 90.6 27 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: putative xre family transcriptional regulator
69d2o38a1
not modelled 90.6 27 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
70c3e6mD_
not modelled 90.5 26 PDB header:transcription regulator
Chain: D: PDB Molecule:marr family transcriptional regulator;
PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.
71c2e1cA_
not modelled 90.5 13 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
72d2a6ca1
not modelled 90.5 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
73d1jhga_
not modelled 90.4 34 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Trp repressor, TrpR
74c2l4aA_
not modelled 90.3 29 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
75c3korD_
not modelled 90.2 29 PDB header:transcription
Chain: D: PDB Molecule:possible trp repressor;
PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus
76c3fzjC_
not modelled 90.2 34 PDB header:transcription regulator
Chain: C: PDB Molecule:lysr type regulator of tsambcd;
PDBTitle: tsar low resolution crystal structure, tetragonal form
77c2wteB_
not modelled 90.1 26 PDB header:antiviral protein
Chain: B: PDB Molecule:csa3;
PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution.
78c1zvvA_
not modelled 90.1 29 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
79d2hr3a1
not modelled 90.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
80d1lnwa_
not modelled 89.9 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
81c3h5tA_
not modelled 89.8 25 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
82c1b9nA_
not modelled 89.8 13 PDB header:transcription
Chain: A: PDB Molecule:protein (mode);
PDBTitle: regulator from escherichia coli
83d1trra_
not modelled 89.7 34 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Trp repressor, TrpR
84c3r0aB_
not modelled 89.6 18 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
85d1aoya_
not modelled 89.6 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Arginine repressor (ArgR), N-terminal DNA-binding domain
86c3kjxD_
not modelled 89.6 21 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
87c2ppxA_
not modelled 89.5 14 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
88d2ppxa1
not modelled 89.5 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
89c2p6tH_
not modelled 89.5 29 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
90c2fa5B_
not modelled 89.3 39 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator marr/emrr family;
PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris
91c3cjnA_
not modelled 89.1 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
92c2gxgA_
not modelled 89.1 19 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
93c3fmyA_
not modelled 89.0 14 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)
94d1s3ja_
not modelled 89.0 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
95d2fbia1
not modelled 88.9 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
96c3bj6B_
not modelled 88.7 30 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
97c2kpjA_
not modelled 88.6 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
98c2y75F_
not modelled 88.3 24 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
99c3bs3A_
not modelled 88.1 23 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
100c3nqoB_
not modelled 87.8 20 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
101c3eqxB_
not modelled 87.7 8 PDB header:dna binding protein
Chain: B: PDB Molecule:fic domain containing transcriptional regulator;
PDBTitle: crystal structure of a fic family protein (so_4266) from shewanella2 oneidensis at 1.6 a resolution
102c1r71B_
not modelled 87.7 18 PDB header:transcription/dna
Chain: B: PDB Molecule:transcriptional repressor protein korb;
PDBTitle: crystal structure of the dna binding domain of korb in2 complex with the operator dna
103c2qwwB_
not modelled 87.7 18 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution
104d1lcda_
not modelled 87.5 25 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
105d1mkma1
not modelled 87.5 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
106d2fbha1
not modelled 87.4 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
107c3lwfD_
not modelled 87.4 20 PDB header:transcription regulator
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator (np_470886.1)2 from listeria innocua at 2.06 a resolution
108c2pexA_
not modelled 87.4 30 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator ohrr;
PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris
109c3nrvC_
not modelled 87.4 23 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
110d2bv6a1
not modelled 87.3 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
111d1xd7a_
not modelled 87.3 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
112d1qpza1
not modelled 87.3 21 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
113d1lj9a_
not modelled 87.1 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
114c3tgnA_
not modelled 86.7 33 PDB header:transcription
Chain: A: PDB Molecule:adc operon repressor adcr;
PDBTitle: crystal structure of the zinc-dependent marr family transcriptional2 regulator adcr in the zn(ii)-bound state
115c2it0A_
not modelled 86.7 26 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
116d1utxa_
not modelled 86.5 25 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
117c3cdhB_
not modelled 86.1 19 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of the marr family transcriptional regulator spo14532 from silicibacter pomeroyi dss-3
118c2fxaB_
not modelled 86.1 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.
119c3hhgF_
not modelled 86.0 24 PDB header:transcription regulator
Chain: F: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: structure of crga, a lysr-type transcriptional regulator from2 neisseria meningitidis.
120d1i5za1
not modelled 85.9 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:CAP C-terminal domain-like

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