Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76510
DateThu Jan 5 12:23:50 GMT 2012
Unique Job IDc13ac53df42cf1a9

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1sd4a_
Top template information
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
Confidence and coverage
Confidence: 95.6% Coverage: 54%
88 residues ( 54% of your sequence) have been modelled with 95.6% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
133 residues ( 81%) 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  MSMSLLNDVQKFIEAHPGCTSGDIADAFAGYSRQRVLQSASKLRQSGRVAHRCEGDTHRH
Secondary structure 
SS confidence 
Disorder  ????
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  FPRLTERAQDPEPQPVRETRPVRNFYVGTNDPRVILCLTRQAEELESRGLYRRAATVWMA
Secondary structure 
SS confidence 
Disorder 
??
????
??????????
?
Disorder confidence 
 
   .........130.........140.........150.........160....
Sequence  AFRESHSQPERNNFLARRERCLRKSSKRAASGEEWYLSGNYVGA
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 1sd4 chain A

3D model

Region: 8 - 100
Aligned: 88
Modelled: 93
Confidence: 95.6%
Identity: 10%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Penicillinase repressor

Phyre2

PDB 3r0a chain B

3D model

Region: 8 - 109
Aligned: 90
Modelled: 102
Confidence: 95.6%
Identity: 14%
PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)

Phyre2

PDB 1p6r chain A

3D model

Region: 8 - 66
Aligned: 59
Modelled: 59
Confidence: 95.3%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Penicillinase repressor

Phyre2

PDB 2d1h chain A domain 1

3D model

Region: 12 - 109
Aligned: 72
Modelled: 0
Confidence: 95.1%
Identity: 24%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: TrmB-like

Phyre2

PDB 3cuo chain B

3D model

Region: 1 - 86
Aligned: 77
Modelled: 86
Confidence: 95.0%
Identity: 16%
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 1okr chain A

3D model

Region: 8 - 107
Aligned: 95
Modelled: 100
Confidence: 94.9%
Identity: 11%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Penicillinase repressor

Phyre2

PDB 2g9w chain A domain 1

3D model

Region: 8 - 107
Aligned: 92
Modelled: 97
Confidence: 94.4%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Penicillinase repressor

Phyre2

PDB 1lnw chain A

3D model

Region: 8 - 108
Aligned: 100
Modelled: 101
Confidence: 94.2%
Identity: 13%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2

PDB 2k4b chain A

3D model

Region: 8 - 65
Aligned: 58
Modelled: 58
Confidence: 93.9%
Identity: 16%
PDB header:dna binding protein
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: copr repressor structure

Phyre2

PDB 1sfx chain A

3D model

Region: 8 - 69
Aligned: 61
Modelled: 62
Confidence: 93.6%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: TrmB-like

Phyre2

PDB 1r1u chain A

3D model

Region: 1 - 66
Aligned: 63
Modelled: 66
Confidence: 92.9%
Identity: 11%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ArsR-like transcriptional regulators

Phyre2

PDB 2fa5 chain B

3D model

Region: 12 - 114
Aligned: 95
Modelled: 103
Confidence: 92.8%
Identity: 16%
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

Phyre2

PDB 1r22 chain B

3D model

Region: 1 - 108
Aligned: 79
Modelled: 81
Confidence: 91.9%
Identity: 20%
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 1lj9 chain A

3D model

Region: 12 - 107
Aligned: 95
Modelled: 96
Confidence: 91.9%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2

PDB 3pqk chain D

3D model

Region: 1 - 86
Aligned: 76
Modelled: 86
Confidence: 91.6%
Identity: 16%
PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa

Phyre2

PDB 3cjn chain A

3D model

Region: 8 - 107
Aligned: 98
Modelled: 97
Confidence: 91.6%
Identity: 13%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi

Phyre2

PDB 2jt1 chain A

3D model

Region: 1 - 66
Aligned: 65
Modelled: 66
Confidence: 91.1%
Identity: 29%
PDB header:transcription
Chain: A: PDB Molecule:pefi protein;
PDBTitle: solution nmr structure of pefi (plasmid-encoded fimbriae regulatory)2 protein from salmonella typhimurium. northeast structural genomics3 target str82

Phyre2

PDB 1s3j chain A

3D model

Region: 9 - 108
Aligned: 99
Modelled: 100
Confidence: 91.1%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2

PDB 2zkz chain C

3D model

Region: 1 - 69
Aligned: 66
Modelled: 68
Confidence: 90.7%
Identity: 8%
PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis

Phyre2

PDB 2qww chain B

3D model

Region: 8 - 136
Aligned: 92
Modelled: 91
Confidence: 90.7%
Identity: 16%
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

Phyre2

PDB 2v6x chain A

3D model

Region: 96 - 145
Aligned: 50
Modelled: 49
Confidence: 76.9%
Identity: 14%
PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 4;
PDBTitle: stractural insight into the interaction between escrt-iii2 and vps4

Phyre2
1
d1sd4a_
2
c3r0aB_
3
d1p6ra_
4
d2d1ha1
5
c3cuoB_
6
d1okra_
7
d2g9wa1
8
d1lnwa_
9
c2k4bA_
10
d1sfxa_
11
d1r1ua_
12
c2fa5B_
13
c1r22B_
14
d1lj9a_
15
c3pqkD_
16
c3cjnA_
17
c2jt1A_
18
d1s3ja_
19
c2zkzC_
20
c2qwwB_
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c2v6xA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1sd4a_
95.6 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
2c3r0aB_
95.6 14 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
3d1p6ra_
95.3 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
4d2d1ha1
95.1 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
5c3cuoB_
95.0 16 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
6d1okra_
94.9 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
7d2g9wa1
94.4 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Penicillinase repressor
8d1lnwa_
94.2 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
9c2k4bA_
93.9 16 PDB header:dna binding protein
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: copr repressor structure
10d1sfxa_
93.6 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
11d1r1ua_
92.9 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
12c2fa5B_
92.8 16 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
13c1r22B_
91.9 20 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
14d1lj9a_
91.9 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
15c3pqkD_
91.6 16 PDB header:transcription
Chain: D: PDB Molecule:biofilm growth-associated repressor;
PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
16c3cjnA_
91.6 13 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
17c2jt1A_
91.1 29 PDB header:transcription
Chain: A: PDB Molecule:pefi protein;
PDBTitle: solution nmr structure of pefi (plasmid-encoded fimbriae regulatory)2 protein from salmonella typhimurium. northeast structural genomics3 target str82
18d1s3ja_
91.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
19c2zkzC_
90.7 8 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
20c2qwwB_
90.7 16 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
21c2oqgA_
not modelled 90.4 17 PDB header:transcription
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein;
PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
22c2rdpA_
not modelled 89.9 13 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
23c3f6oB_
not modelled 89.6 13 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
24d2a61a1
not modelled 89.1 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
25c3f6vA_
not modelled 88.8 19 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
26c3jthA_
not modelled 88.4 19 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
27c3bj6B_
not modelled 88.3 12 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
28d2etha1
not modelled 87.9 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
29c3bpxB_
not modelled 87.9 14 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of marr
30d1r1ta_
not modelled 87.7 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
31c2x4hA_
not modelled 87.5 21 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
32d1z05a1
not modelled 86.8 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ROK associated domain
33c3e6mD_
not modelled 86.5 16 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.
34c2nnnB_
not modelled 86.1 9 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
35c2wteB_
not modelled 85.9 13 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.
36d2hr3a1
not modelled 85.9 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
37c1f5tA_
not modelled 85.7 18 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
38c3boqB_
not modelled 85.1 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
39d1biaa1
not modelled 85.1 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
40d1ku9a_
not modelled 85.1 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:DNA-binding protein Mj223
41d2fbha1
not modelled 84.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
42c3nrvC_
not modelled 84.5 14 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
43d1mkma1
not modelled 84.4 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
44d2fbia1
not modelled 84.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
45c3g3zA_
not modelled 84.1 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
46c2nyxB_
not modelled 84.0 14 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
47c3k0lA_
not modelled 83.9 12 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
48c2jscB_
not modelled 83.5 21 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
49c3oopA_
not modelled 83.5 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2960 protein;
PDBTitle: the structure of a protein with unknown function from listeria innocua2 clip11262
50c3bddD_
not modelled 83.4 8 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
51c3bjaA_
not modelled 83.3 10 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution
52d2bv6a1
not modelled 82.5 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
53c3fm5D_
not modelled 82.1 12 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator;
PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1
54c3deuB_
not modelled 82.0 20 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator slya;
PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands
55d2p4wa1
not modelled 82.0 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:PF1790-like
56c2pexA_
not modelled 81.7 11 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator ohrr;
PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris
57c3k69A_
not modelled 81.4 17 PDB header:transcription
Chain: A: PDB Molecule:putative transcription regulator;
PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution
58d1xd7a_
not modelled 80.7 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
59c3cdhB_
not modelled 80.1 10 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
60c2h09A_
not modelled 79.5 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
61c2it0A_
not modelled 79.4 18 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
62c2kkoB_
not modelled 78.4 17 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.
63c2gxgA_
not modelled 78.1 15 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
64d1u2wa1
not modelled 78.0 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
65c2ev5B_
not modelled 77.9 19 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator mntr;
PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
66d1ub9a_
not modelled 77.8 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
67d1z91a1
not modelled 77.8 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
68c3hrmA_
not modelled 77.7 14 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator sarz;
PDBTitle: crystal structure of staphylococcus aureus protein sarz in sulfenic2 acid form
69d1jgsa_
not modelled 77.6 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
70d3ctaa1
not modelled 77.4 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
71c2v6xA_
76.9 14 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 4;
PDBTitle: stractural insight into the interaction between escrt-iii2 and vps4
72d1ylfa1
not modelled 76.8 24 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator Rrf2
73d1jhfa1
not modelled 76.7 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LexA repressor, N-terminal DNA-binding domain
74c2fxaB_
not modelled 74.5 14 PDB header:transcription
Chain: B: PDB Molecule:protease production regulatory protein hpr;
PDBTitle: structure of the protease production regulatory protein hpr from2 bacillus subtilis.
75d1stza1
not modelled 73.4 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Heat-inducible transcription repressor HrcA, N-terminal domain
76c3by6C_
not modelled 73.4 9 PDB header:transcription regulator
Chain: C: PDB Molecule:predicted transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni
77c1mkmA_
not modelled 72.2 17 PDB header:transcription
Chain: A: PDB Molecule:iclr transcriptional regulator;
PDBTitle: crystal structure of the thermotoga maritima iclr
78d1ucra_
not modelled 71.9 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Dissimilatory sulfite reductase DsvD
79d1g3wa1
not modelled 70.6 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
80c2qufB_
not modelled 70.4 9 PDB header:transcription
Chain: B: PDB Molecule:transcription factor pf0095;
PDBTitle: crystal structure of transcription factor axxa-pf0095 from pyrococcus2 furiosus
81d1pdnc_
not modelled 69.9 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
82d1wfda_
not modelled 69.7 11 Fold:Spectrin repeat-like
Superfamily:MIT domain
Family:MIT domain
83d2fxaa1
not modelled 69.2 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
84c3nqoB_
not modelled 69.1 15 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
85c3f3xA_
not modelled 68.7 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of the transcriptional regulator bldr2 from sulfolobus solfataricus
86d1hsja1
not modelled 67.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
87d1p4xa2
not modelled 67.1 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
88d3deua1
not modelled 66.9 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
89d2frha1
not modelled 66.7 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
90c3tgnA_
not modelled 66.6 11 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
91d2fswa1
not modelled 66.6 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:HxlR-like
92d2ev0a1
not modelled 66.1 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
93c3eqxB_
not modelled 65.9 15 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
94d1j5ya1
not modelled 65.9 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
95c3kp3B_
not modelled 65.7 13 PDB header:transcription regulator/antibiotic
Chain: B: PDB Molecule:transcriptional regulator tcar;
PDBTitle: staphylococcus epidermidis in complex with ampicillin
96d2isya1
not modelled 63.4 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Iron-dependent repressor protein
97c1hlvA_
not modelled 63.4 15 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:major centromere autoantigen b;
PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna
98c2xroE_
not modelled 62.6 15 PDB header:dna-binding protein/dna
Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv;
PDBTitle: crystal structure of ttgv in complex with its dna operator
99d3bwga1
not modelled 62.1 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators
100d2hzta1
not modelled 61.9 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:HxlR-like
101c3df8A_
not modelled 61.8 24 PDB header:transcription
Chain: A: PDB Molecule:possible hxlr family transcriptional factor;
PDBTitle: the crystal structure of a possible hxlr family transcriptional factor2 from thermoplasma volcanium gss1
102d1k78a1
not modelled 61.6 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
103c2y75F_
not modelled 61.4 30 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
104d2cyya1
not modelled 61.1 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
105c3s2wB_
not modelled 60.6 17 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
106d3broa1
not modelled 59.2 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
107d6paxa1
not modelled 59.1 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
108c3eyyA_
not modelled 58.9 19 PDB header:transport
Chain: A: PDB Molecule:putative iron uptake regulatory protein;
PDBTitle: structural basis for the specialization of nur, a nickel-2 specific fur homologue, in metal sensing and dna3 recognition
109d2cfxa1
not modelled 57.6 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
110d1p4xa1
not modelled 57.6 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
111c2pjpA_
not modelled 57.4 15 PDB header:translation/rna
Chain: A: PDB Molecule:selenocysteine-specific elongation factor;
PDBTitle: structure of the mrna-binding domain of elongation factor2 selb from e.coli in complex with secis rna
112c1g3wA_
not modelled 57.3 18 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
113c3ctaA_
not modelled 56.8 25 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
114c2o0yB_
not modelled 56.5 15 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp.
115c2k7rA_
not modelled 56.2 21 PDB header:replication
Chain: A: PDB Molecule:primosomal protein dnai;
PDBTitle: n-terminal domain of the bacillus subtilis helicase-loading2 protein dnai
116d2jq9a1
not modelled 55.4 18 Fold:Spectrin repeat-like
Superfamily:MIT domain
Family:MIT domain
117c2ia2D_
not modelled 54.8 23 PDB header:transcription
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1
118d2htja1
not modelled 54.8 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FaeA-like
119c3lwfD_
not modelled 54.1 26 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
120d2cg4a1
not modelled 53.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite


Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0