Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionA4UR86
DateThu Jan 5 10:55:12 GMT 2012
Unique Job ID9200d69b0bbc61c3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3gbgA_
Top template information
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
Confidence and coverage
Confidence:100.0% Coverage: 90%
252 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  MMQPVINAPEIATAREQQLFNGKNFHVFIYNKTESISGLHQHDYYEFTLVLTGRYFQEIN
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SS confidence 



























































Disorder  ???????
???
?




?













??
























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   .........70.........80.........90.........100.........110.........120
Sequence  GKRVLLERGDFVFIPLGSHHQSFYEFGATRILNVGISKRFFEQHYLPLLPYCFVASQVYR
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????????
??
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   .........130.........140.........150.........160.........170.........180
Sequence  TNNAFLTYVETVISALNFRETGLEEFVEMVTFYVINRLRHYREEQVIDDVPQWLKSTVEK
Secondary structure 













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Disorder  ?
















????

















??????????









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   .........190.........200.........210.........220.........230.........240
Sequence  MHDKEQFSESALENMVALSAKSQEYLTRATQRYYGKTPMQIINEIRINFAKKQLEMTNYS
Secondary structure 















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Disorder 























































?


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   .........250.........260.........270.........280
Sequence  VTDIAFEAGYSSPSLFIKTFKKLTSFTPKSYRKKLTEFNQ
Secondary structure 









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Disorder 



































????
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Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 3gbg chain A

3D model

Region: 23 - 276
Aligned: 252
Modelled: 254
Confidence: 100.0%
Identity: 13%
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395

Phyre2

PDB 1d5y chain D

3D model

Region: 171 - 274
Aligned: 104
Modelled: 104
Confidence: 99.9%
Identity: 22%
PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna

Phyre2

PDB 3oou chain A

3D model

Region: 174 - 276
Aligned: 103
Modelled: 103
Confidence: 99.9%
Identity: 27%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua

Phyre2

PDB 3oio chain A

3D model

Region: 168 - 277
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 21%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum

Phyre2

PDB 1bl0 chain A

3D model

Region: 171 - 279
Aligned: 109
Modelled: 109
Confidence: 99.9%
Identity: 19%
PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex

Phyre2

PDB 3mn2 chain B

3D model

Region: 173 - 276
Aligned: 104
Modelled: 104
Confidence: 99.9%
Identity: 21%
PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009

Phyre2

PDB 3mkl chain B

3D model

Region: 167 - 277
Aligned: 110
Modelled: 111
Confidence: 99.9%
Identity: 19%
PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12

Phyre2

PDB 2k9s chain A

3D model

Region: 172 - 274
Aligned: 103
Modelled: 103
Confidence: 99.9%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac

Phyre2

PDB 3lsg chain D

3D model

Region: 173 - 264
Aligned: 92
Modelled: 92
Confidence: 99.8%
Identity: 21%
PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586

Phyre2

PDB 1bl0 chain A domain 2

3D model

Region: 225 - 273
Aligned: 49
Modelled: 49
Confidence: 99.5%
Identity: 22%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1d5y chain A domain 2

3D model

Region: 225 - 273
Aligned: 49
Modelled: 49
Confidence: 99.5%
Identity: 31%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 2arc chain A

3D model

Region: 39 - 160
Aligned: 122
Modelled: 122
Confidence: 98.9%
Identity: 15%
Fold: Double-stranded beta-helix
Superfamily: Regulatory protein AraC
Family: Regulatory protein AraC

Phyre2

PDB 1bl0 chain A domain 1

3D model

Region: 171 - 223
Aligned: 53
Modelled: 53
Confidence: 98.8%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1d5y chain A domain 1

3D model

Region: 171 - 223
Aligned: 53
Modelled: 53
Confidence: 98.8%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 3ibm chain B

3D model

Region: 21 - 96
Aligned: 76
Modelled: 76
Confidence: 98.8%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of cupin 2 domain-containing protein hhal_0468 from2 halorhodospira halophila

Phyre2

PDB 1zgw chain A

3D model

Region: 171 - 229
Aligned: 57
Modelled: 59
Confidence: 98.7%
Identity: 19%
PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna

Phyre2

PDB 3kgz chain A

3D model

Region: 37 - 99
Aligned: 63
Modelled: 63
Confidence: 98.6%
Identity: 21%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: crystal structure of a cupin 2 conserved barrel domain protein from2 rhodopseudomonas palustris

Phyre2

PDB 3jzv chain A

3D model

Region: 21 - 99
Aligned: 79
Modelled: 79
Confidence: 98.6%
Identity: 19%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein rru_a2000;
PDBTitle: crystal structure of rru_a2000 from rhodospirillum rubrum: a cupin-22 domain.

Phyre2

PDB 3h7y chain A

3D model

Region: 24 - 103
Aligned: 80
Modelled: 80
Confidence: 98.6%
Identity: 11%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:bacilysin biosynthesis protein bacb;
PDBTitle: crystal structure of bacb, an enzyme involved in bacilysin synthesis,2 in tetragonal form

Phyre2

PDB 1vj2 chain A

3D model

Region: 21 - 102
Aligned: 82
Modelled: 82
Confidence: 98.6%
Identity: 17%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: TM1459-like

Phyre2

PDB 2ozj chain B

3D model

Region: 5 - 97
Aligned: 93
Modelled: 91
Confidence: 98.5%
Identity: 14%
PDB header:unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel;
PDBTitle: crystal structure of a cupin superfamily protein (dsy2733) from2 desulfitobacterium hafniense dcb-2 at 1.60 a resolution

Phyre2
1

c3gbgA_
2

c1d5yD_
3

c3oouA_
4

c3oioA_
5

c1bl0A_
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c3mn2B_
7

c3mklB_
8

c2k9sA_
9

c3lsgD_
10

d1bl0a2
11

d1d5ya2
12

d2arca_
13

d1bl0a1
14

d1d5ya1
15

c3ibmB_
16

c1zgwA_
17

c3kgzA_
18

c3jzvA_
19

c3h7yA_
20

d1vj2a_
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c2ozjB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3gbgA_



100.0 13 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
2c1d5yD_



99.9 22 PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna
3c3oouA_



99.9 27 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
4c3oioA_



99.9 21 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum
5c1bl0A_



99.9 19 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
6c3mn2B_



99.9 21 PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009
7c3mklB_



99.9 19 PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12
8c2k9sA_



99.9 17 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
9c3lsgD_



99.8 21 PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586
10d1bl0a2



99.5 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
11d1d5ya2



99.5 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
12d2arca_



98.9 15 Fold:Double-stranded beta-helix
Superfamily:Regulatory protein AraC
Family:Regulatory protein AraC
13d1bl0a1



98.8 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
14d1d5ya1



98.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
15c3ibmB_



98.8 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of cupin 2 domain-containing protein hhal_0468 from2 halorhodospira halophila
16c1zgwA_



98.7 19 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
17c3kgzA_



98.6 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: crystal structure of a cupin 2 conserved barrel domain protein from2 rhodopseudomonas palustris
18c3jzvA_



98.6 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein rru_a2000;
PDBTitle: crystal structure of rru_a2000 from rhodospirillum rubrum: a cupin-22 domain.
19c3h7yA_



98.6 11 PDB header:biosynthetic protein
Chain: A: PDB Molecule:bacilysin biosynthesis protein bacb;
PDBTitle: crystal structure of bacb, an enzyme involved in bacilysin synthesis,2 in tetragonal form
20d1vj2a_



98.6 17 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
21d1yfua1



not modelled 98.6 20 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
22c2ozjB_



98.5 14 PDB header:unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel;
PDBTitle: crystal structure of a cupin superfamily protein (dsy2733) from2 desulfitobacterium hafniense dcb-2 at 1.60 a resolution
23c3fjsC_



not modelled 98.4 16 PDB header:biosynthetic protein
Chain: C: PDB Molecule:uncharacterized protein with rmlc-like cupin fold;
PDBTitle: crystal structure of a putative biosynthetic protein with rmlc-like2 cupin fold (reut_b4087) from ralstonia eutropha jmp134 at 1.90 a3 resolution
24d1y3ta1



not modelled 98.4 18 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
25d1y9qa2



not modelled 98.4 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Probable transcriptional regulator VC1968, C-terminal domain
26c3cewA_



not modelled 98.4 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized cupin protein;
PDBTitle: crystal structure of a cupin protein (bf4112) from bacteroides2 fragilis. northeast structural genomics consortium target bfr205
27c2gu9B_



not modelled 98.3 14 PDB header:immune system
Chain: B: PDB Molecule:tetracenomycin polyketide synthesis protein;
PDBTitle: crystal structure of xc5357 from xanthomonas campestris: a2 putative tetracenomycin polyketide synthesis protein3 adopting a novel cupin subfamily structure
28c2pfwB_



not modelled 98.3 21 PDB header:unknown function
Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of a rmlc-like cupin (sfri_3105) from shewanella2 frigidimarina ncimb 400 at 1.90 a resolution
29d1sq4a_



not modelled 98.3 14 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
30d1sefa_



not modelled 98.3 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
31c1sefA_



not modelled 98.3 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis
32d1lr5a_



not modelled 98.3 18 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
33c3rnsA_



not modelled 98.3 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: cupin 2 conserved barrel domain protein from leptotrichia buccalis
34d1uika1



not modelled 98.3 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
35c3bu7A_



not modelled 98.3 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:gentisate 1,2-dioxygenase;
PDBTitle: crystal structure and biochemical characterization of gdosp,2 a gentisate 1,2-dioxygenase from silicibacter pomeroyi
36d3bu7a1



not modelled 98.3 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
37d1o4ta_



not modelled 98.2 28 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
38c3d82A_



not modelled 98.2 16 PDB header:metal binding protein
Chain: A: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of a cupin-2 domain containing protein (sfri_3543)2 from shewanella frigidimarina ncimb 400 at 2.05 a resolution
39d1sfna_



not modelled 98.2 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
40d1yhfa1



not modelled 98.2 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
41c2d40C_



not modelled 98.2 10 PDB header:oxidoreductase
Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase;
PDBTitle: crystal structure of z3393 from escherichia coli o157:h7
42c2o8qA_



not modelled 98.2 23 PDB header:metal binding protein
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a protein with a cupin-like fold and unknown2 function (bxe_c0505) from burkholderia xenovorans lb400 at 1.55 a3 resolution
43d1uija1



not modelled 98.2 17 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
44d2b8ma1



not modelled 98.2 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:MJ0764-like
45c3i7dB_



not modelled 98.2 21 PDB header:isomerase
Chain: B: PDB Molecule:sugar phosphate isomerase;
PDBTitle: crystal structure of sugar phosphate isomerase from a cupin2 superfamily spo2919 from silicibacter pomeroyi (yp_168127.1) from3 silicibacter pomeroyi dss-3 at 2.30 a resolution
46d1v70a_



not modelled 98.2 21 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
47d2phda1



not modelled 98.2 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
48d2d40a1



not modelled 98.2 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
49c3l2hD_



not modelled 98.1 21 PDB header:isomerase
Chain: D: PDB Molecule:putative sugar phosphate isomerase;
PDBTitle: crystal structure of putative sugar phosphate isomerase (afe_0303)2 from acidithiobacillus ferrooxidans atcc 23270 at 1.85 a resolution
50c3ht2A_



not modelled 98.1 21 PDB header:lyase
Chain: A: PDB Molecule:remf protein;
PDBTitle: zink containing polyketide cyclase remf from streptomyces2 resistomycificus
51c2oa2A_



not modelled 98.1 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:bh2720 protein;
PDBTitle: crystal structure of bh2720 (10175341) from bacillus halodurans at2 1.41 a resolution
52d2f4pa1



not modelled 98.1 22 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
53d1zvfa1



not modelled 98.1 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
54d1rc6a_



not modelled 98.0 17 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
55c2i45C_



not modelled 98.0 21 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis
56c3bcwB_



not modelled 98.0 15 PDB header:unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a duf861 family protein with a rmlc-like cupin2 fold (bb1179) from bordetella bronchiseptica rb50 at 1.60 a3 resolution
57d1zrra1



not modelled 98.0 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Acireductone dioxygenase
58c3h8uA_



not modelled 98.0 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized conserved protein with double-stranded
PDBTitle: crystal structure of uncharacterized conserved protein with double-2 stranded beta-helix domain (yp_001338853.1) from klebsiella3 pneumoniae subsp. pneumoniae mgh 78578 at 1.80 a resolution
59d1dgwa_



not modelled 98.0 17 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
60c2vpvA_



not modelled 97.9 13 PDB header:cell cycle
Chain: A: PDB Molecule:protein mif2;
PDBTitle: dimerization domain of mif2p
61c3lwcA_



not modelled 97.9 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of structural genomics, unknown function2 (yp_766765.1) from rhizobium leguminosarum bv. viciae 3841 at 1.40 a3 resolution
62d1juha_



not modelled 97.8 22 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
63c2q30C_



not modelled 97.8 14 PDB header:unknown function
Chain: C: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a rmlc-like cupin protein (dde_2303) from2 desulfovibrio desulfuricans subsp. at 1.94 a resolution
64d1x82a_



not modelled 97.8 20 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Glucose-6-phosphate isomerase, GPI
65d1j3pa_



not modelled 97.8 20 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Glucose-6-phosphate isomerase, GPI
66d1j58a_



not modelled 97.7 25 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
67c3es1A_



not modelled 97.7 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2, conserved barrel domain protein;
PDBTitle: crystal structure of protein with a cupin-like fold and unknown2 function (yp_001165807.1) from novosphingobium aromaticivorans dsm3 12444 at 1.91 a resolution
68c2vqaC_



not modelled 97.7 21 PDB header:metal-binding protein
Chain: C: PDB Molecule:sll1358 protein;
PDBTitle: protein-folding location can regulate mn versus cu- or zn-2 binding. crystal structure of mnca.
69c2fqpD_



not modelled 97.6 18 PDB header:metal binding protein
Chain: D: PDB Molecule:hypothetical protein bp2299;
PDBTitle: crystal structure of a cupin domain (bp2299) from bordetella pertussis2 tohama i at 1.80 a resolution
70c1y9qA_



not modelled 97.6 16 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
71c1uijA_



not modelled 97.6 17 PDB header:sugar binding protein
Chain: A: PDB Molecule:beta subunit of beta conglycinin;
PDBTitle: crystal structure of soybean beta-conglycinin beta2 homotrimer (i122m/k124w)
72c2eaaB_



not modelled 97.6 18 PDB header:plant protein
Chain: B: PDB Molecule:7s globulin-3;
PDBTitle: crystal structure of adzuki bean 7s globulin-3
73d1o5ua_



not modelled 97.5 22 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Hypothetical protein TM1112
74d2et1a1



not modelled 97.5 22 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
75d1fxza1



not modelled 97.5 10 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
76c2oziA_



not modelled 97.4 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein rpa4178;
PDBTitle: structural genomics, the crystal structure of a putative2 protein rpa4178 from rhodopseudomonas palustris cga009
77d2phla1



not modelled 97.4 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
78d2bnma2



not modelled 97.3 20 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
79c3s7eB_



not modelled 97.3 16 PDB header:allergen
Chain: B: PDB Molecule:allergen ara h 1, clone p41b;
PDBTitle: crystal structure of ara h 1
80d2pyta1



not modelled 97.3 19 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:EutQ-like
81d2phla2



not modelled 97.3 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
82c2cauA_



not modelled 97.2 16 PDB header:plant protein
Chain: A: PDB Molecule:protein (canavalin);
PDBTitle: canavalin from jack bean
83c2opkC_



not modelled 97.1 14 PDB header:isomerase
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution
84d1fxza2



not modelled 97.1 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
85d1od5a1



not modelled 97.1 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
86c1cauB_



not modelled 97.0 15 PDB header:seed storage protein
Chain: B: PDB Molecule:canavalin;
PDBTitle: determination of three crystal structures of canavalin by molecular2 replacement
87d1od5a2



not modelled 97.0 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
88d1uika2



not modelled 97.0 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
89c1fxzC_



not modelled 97.0 10 PDB header:plant protein
Chain: C: PDB Molecule:glycinin g1;
PDBTitle: crystal structure of soybean proglycinin a1ab1b homotrimer
90c3kglB_



not modelled 96.8 10 PDB header:plant protein
Chain: B: PDB Molecule:cruciferin;
PDBTitle: crystal structure of procruciferin, 11s globulin from2 brassica napus
91d1vr3a1



not modelled 96.8 23 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Acireductone dioxygenase
92c3kscD_



not modelled 96.7 12 PDB header:plant protein
Chain: D: PDB Molecule:lega class;
PDBTitle: crystal structure of pea prolegumin, an 11s seed globulin2 from pisum sativum l.
93c2bnoA_



not modelled 96.7 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
94d1uija2



not modelled 96.7 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
95c3qacA_



not modelled 96.6 15 PDB header:plant protein
Chain: A: PDB Molecule:11s globulin seed storage protein;
PDBTitle: structure of amaranth 11s proglobulin seed storage protein from2 amaranthus hypochondriacus l.
96c3myxA_



not modelled 96.6 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pspto_0244;
PDBTitle: crystal structure of a pspto_0244 (protein with unknown function which2 belongs to pfam duf861 family) from pseudomonas syringae pv. tomato3 str. dc3000 at 1.30 a resolution
97c3ebrA_



not modelled 96.5 8 PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized rmlc-like cupin;
PDBTitle: crystal structure of an rmlc-like cupin protein (reut_a0381) from2 ralstonia eutropha jmp134 at 2.60 a resolution
98c2d5fB_



not modelled 96.5 20 PDB header:plant protein
Chain: B: PDB Molecule:glycinin a3b4 subunit;
PDBTitle: crystal structure of recombinant soybean proglycinin a3b4 subunit, its2 comparison with mature glycinin a3b4 subunit, responsible for hexamer3 assembly
99c3es4B_



not modelled 96.4 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein duf861 with a rmlc-like cupin fold;
PDBTitle: crystal structure of protein of unknown function (duf861) with a rmlc-2 like cupin fold (17741406) from agrobacterium tumefaciens str. c583 (dupont) at 1.64 a resolution
100c2e9qA_



not modelled 96.3 20 PDB header:plant protein
Chain: A: PDB Molecule:11s globulin subunit beta;
PDBTitle: recombinant pro-11s globulin of pumpkin
101c3c3vA_



not modelled 96.2 10 PDB header:allergen
Chain: A: PDB Molecule:arachin arah3 isoform;
PDBTitle: crystal structure of peanut major allergen ara h 3
102c2qnkA_



not modelled 96.1 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:3-hydroxyanthranilate 3,4-dioxygenase;
PDBTitle: crystal structure of human 3-hydroxyanthranilate 3,4-dioxygenase
103c3o14B_



not modelled 96.0 23 PDB header:gene regulation
Chain: B: PDB Molecule:anti-ecfsigma factor, chrr;
PDBTitle: crystal structure of an anti-ecfsigma factor, chrr (maqu_0586) from2 marinobacter aquaeolei vt8 at 1.70 a resolution
104c3ehkC_



not modelled 96.0 15 PDB header:plant protein
Chain: C: PDB Molecule:prunin;
PDBTitle: crystal structure of pru du amandin, an allergenic protein2 from prunus dulcis
105c3balB_



not modelled 95.7 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:acetylacetone-cleaving enzyme;
PDBTitle: crystal structure of an acetylacetone dioxygenase from2 acinetobacter johnsonii
106c2xlfA_



not modelled 95.4 16 PDB header:metal binding protein
Chain: A: PDB Molecule:sll1785 protein;
PDBTitle: structure and metal-loading of a soluble periplasm cupro-protein:2 apo-cuca-closed (semet)
107d2hsga1



not modelled 95.2 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
108d1sgma1



not modelled 95.1 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
109d2o1qa1



not modelled 94.9 8 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Acetylacetone-cleaving enzyme-like
110c3on4D_



not modelled 94.7 6 PDB header:transcription
Chain: D: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of tetr transcriptional regulator from legionella2 pneumophila
111c1sgmA_



not modelled 94.6 11 PDB header:transcription
Chain: A: PDB Molecule:putative hth-type transcriptional regulator yxaf;
PDBTitle: crystal structure of hypothetical protein yxaf
112c3cjxE_



not modelled 94.5 15 PDB header:unknown function
Chain: E: PDB Molecule:protein of unknown function with a cupin-like fold;
PDBTitle: crystal structure of a protein of unknown function with a cupin-like2 fold (reut_b4571) from ralstonia eutropha jmp134 at 2.60 a resolution
113c2y0oA_



not modelled 94.4 15 PDB header:isomerase
Chain: A: PDB Molecule:probable d-lyxose ketol-isomerase;
PDBTitle: the structure of a d-lyxose isomerase from the sigmab2 regulon of bacillus subtilis
114d1vrba1



not modelled 94.3 14 Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Asparaginyl hydroxylase-like
115d2bjca1



not modelled 94.2 15 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
116d1efaa1



not modelled 94.1 14 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
117c3h1yA_



not modelled 94.0 13 PDB header:isomerase
Chain: A: PDB Molecule:mannose-6-phosphate isomerase;
PDBTitle: crystal structure of mannose 6-phosphate isomerase from2 salmonella typhimurium bound to substrate (f6p)and metal3 atom (zn)
118d1jt6a1



not modelled 94.0 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
119d2fbqa1



not modelled 93.9 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
120c2dg7A_



not modelled 93.6 8 PDB header:gene regulation
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of the putative transcriptional regulator sco03372 from streptomyces coelicolor a3(2)

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