Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP37639
DateThu Jan 5 11:56:11 GMT 2012
Unique Job IDafceb4da4c5e5730

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: 84%
231 residues ( 84% 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  MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVFVSRDTLS
Secondary structure 
























SS confidence 



























































Disorder  ????























































Disorder confidence 



























































 
   .........70.........80.........90.........100.........110.........120
Sequence  LFLPMLKEEALNLHAHKKVSSLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFA
Secondary structure 












SS confidence 



























































Disorder 













?
???






















??????











Disorder confidence 



























































 
   .........130.........140.........150.........160.........170.........180
Sequence  LLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLR
Secondary structure 













SS confidence 



























































Disorder 







?????????????






































Disorder confidence 



























































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

















SS confidence 



























































Disorder 























??

































Disorder confidence 



























































 
   .........250.........260.........270....
Sequence  ERSAQRLSNRDSAASIVAQGNFYGTDRSAEGIRL
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 3gbg chain A

3D model

Region: 5 - 242
Aligned: 231
Modelled: 237
Confidence: 100.0%
Identity: 18%
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395

Phyre2

PDB 3mkl chain B

3D model

Region: 137 - 246
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 95%
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 1d5y chain D

3D model

Region: 140 - 242
Aligned: 103
Modelled: 103
Confidence: 99.9%
Identity: 14%
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 3oio chain A

3D model

Region: 137 - 246
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 26%
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 3oou chain A

3D model

Region: 143 - 243
Aligned: 101
Modelled: 101
Confidence: 99.9%
Identity: 18%
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 1bl0 chain A

3D model

Region: 140 - 245
Aligned: 106
Modelled: 106
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: 142 - 243
Aligned: 102
Modelled: 102
Confidence: 99.9%
Identity: 22%
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 2k9s chain A

3D model

Region: 141 - 243
Aligned: 103
Modelled: 103
Confidence: 99.9%
Identity: 23%
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: 142 - 233
Aligned: 92
Modelled: 92
Confidence: 99.8%
Identity: 22%
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: 194 - 252
Aligned: 59
Modelled: 59
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: 194 - 242
Aligned: 49
Modelled: 49
Confidence: 99.5%
Identity: 18%
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: 140 - 191
Aligned: 52
Modelled: 52
Confidence: 98.9%
Identity: 10%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1bl0 chain A domain 1

3D model

Region: 140 - 191
Aligned: 52
Modelled: 52
Confidence: 98.8%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: AraC type transcriptional activator

Phyre2

PDB 1zgw chain A

3D model

Region: 142 - 197
Aligned: 54
Modelled: 56
Confidence: 98.7%
Identity: 20%
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 2arc chain A

3D model

Region: 5 - 125
Aligned: 121
Modelled: 121
Confidence: 97.5%
Identity: 12%
Fold: Double-stranded beta-helix
Superfamily: Regulatory protein AraC
Family: Regulatory protein AraC

Phyre2

PDB 3ibm chain B

3D model

Region: 5 - 59
Aligned: 55
Modelled: 55
Confidence: 96.7%
Identity: 5%
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 3kgz chain A

3D model

Region: 5 - 55
Aligned: 51
Modelled: 51
Confidence: 96.5%
Identity: 14%
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 2pfw chain B

3D model

Region: 5 - 55
Aligned: 51
Modelled: 51
Confidence: 96.4%
Identity: 16%
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

Phyre2

PDB 3h7y chain A

3D model

Region: 5 - 55
Aligned: 51
Modelled: 51
Confidence: 96.1%
Identity: 16%
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 3jzv chain A

3D model

Region: 5 - 55
Aligned: 51
Modelled: 51
Confidence: 95.9%
Identity: 10%
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
1

c3gbgA_
2

c3mklB_
3

c1d5yD_
4

c3oioA_
5

c3oouA_
6

c1bl0A_
7

c3mn2B_
8

c2k9sA_
9

c3lsgD_
10

d1bl0a2
11

d1d5ya2
12

d1d5ya1
13

d1bl0a1
14

c1zgwA_
15

d2arca_
16

c3ibmB_
17

c3kgzA_
18

c2pfwB_
19

c3h7yA_
20

c3jzvA_
21



22



23



24



25



26



27



28



29



30



31



32



33



34



35



36



37



38



39



40



41



42



43



44



45



46



47



48



49



50



51



52



53



54



55



56



57



58



59



60



61



62



63



64



65



66



67



68



69



70



71



72



73



74



75



76



77



78



79



80



81



82



83



84



85



86



87



88



89



90



91



92



93



94



95



96



97



98



99



100



101



102



103



104



105



106



107



108



109



110



111



112



113



114



115



116



117



118



119



120



121



122



123



124



125



126



127



128



129



130



131



132



133



134



135



136



137



138



139



140



141



142



143



144



145



146



147



148



149



150



151



152



153



154



155



156



157



158



159



160



161



162



163



164



165



166



167



168



169



170



171



172



173



174



175



176



177



178



179



180



181



182



183



184



185



186



187



188



189



190



191



192



193



194



195



196



197



198



199



200



201



202



203



204



205



206



207



208



209



210



211



212



213



214



215



216



217



218



219



220



221



222



223



224



225



226



227



228



229



230



231



232



233



234



235



236



237



238



239



240



241



242



243



244



245



246



247



248



249



250



251



252



253



254



255



256



257



258



259



260



261



262



263



264



265



266



267



268



269



270



271



272



273



274



275



276



277



278



279



280



281



282



283



284



285



286



287



288



289



290



291



292



293



294



295



296



297



298



299



300



301



302



303



304



305



306



307



308



309



310



311



312



313



314



315



316



317



318



319



320



321



322



323



324



325



326



327



328



329



330



331



332



333



334



335



336



337



338



339



340



341



342



343



344



345



346



347



348



349



350



351



352



353



354



355



356



357



358



359



360



361



362



363



364



365



366



367



368



369



370



371



372



373



374



375



376



377



378



379



380



381



382



383



384



385



386



387



388



389



390



391



392



393



394



395



396



397



398



399



400



401



402



403



404



405



406



407



408



409



410



411



412



413



414



415



416



417



418



419



420



421



422



423



424



425



426



427



428



429



430



431



432



433



434



435



436



437



438



439



440



441



442



443



444



445



446



447



448



449



450



451



452



453



454



455



456



457



458



459



460



461



462



463



464



465



466



467



468



469



470



471



472



473



474



475



476



477



478



479



480



481



482



483



484



485



486



487



488



489



490



491



492



493



494



495



496



497



498



499






Detailed template information 

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



100.0 18 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
2c3mklB_



99.9 95 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
3c1d5yD_



99.9 14 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
4c3oioA_



99.9 26 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
5c3oouA_



99.9 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
6c1bl0A_



99.9 19 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
7c3mn2B_



99.9 22 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
8c2k9sA_



99.9 23 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 22 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 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
12d1d5ya1



98.9 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
13d1bl0a1



98.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
14c1zgwA_



98.7 20 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
15d2arca_



97.5 12 Fold:Double-stranded beta-helix
Superfamily:Regulatory protein AraC
Family:Regulatory protein AraC
16c3ibmB_



96.7 5 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
17c3kgzA_



96.5 14 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
18c2pfwB_



96.4 16 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
19c3h7yA_



96.1 16 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
20c3jzvA_



95.9 10 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.
21d1yhfa1



not modelled 95.9 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
22d1vj2a_



not modelled 95.9 8 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
23c3fjsC_



not modelled 95.9 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
24c3cewA_



not modelled 95.7 15 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
25c2ozjB_



not modelled 95.6 8 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
26d1rc6a_



not modelled 95.6 19 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
27d1sq4a_



not modelled 95.5 14 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
28c3rnsA_



not modelled 95.4 8 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
29d1sfna_



not modelled 95.4 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
30d1o4ta_



not modelled 95.4 20 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
31d1y9qa2



not modelled 95.4 8 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Probable transcriptional regulator VC1968, C-terminal domain
32c3iwfA_



not modelled 95.4 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator rpir family;
PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
33c3d82A_



not modelled 95.4 6 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
34c2d40C_



not modelled 95.3 12 PDB header:oxidoreductase
Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase;
PDBTitle: crystal structure of z3393 from escherichia coli o157:h7
35c1u78A_



not modelled 95.2 10 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:transposable element tc3 transposase;
PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna
36c1sefA_



not modelled 95.1 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis
37d1sefa_



not modelled 95.1 17 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:YlbA-like
38c2vpvA_



not modelled 95.1 9 PDB header:cell cycle
Chain: A: PDB Molecule:protein mif2;
PDBTitle: dimerization domain of mif2p
39c2gu9B_



not modelled 95.1 12 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
40d2f4pa1



not modelled 95.0 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
41d2d40a1



not modelled 95.0 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
42c3lwcA_



not modelled 94.8 10 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
43d1v70a_



not modelled 94.8 18 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1287-like
44d1y3ta1



not modelled 94.7 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
45c2i45C_



not modelled 94.4 14 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis
46d2phda1



not modelled 94.4 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
47d2hsga1



not modelled 94.2 11 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
48d2b8ma1



not modelled 94.1 6 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:MJ0764-like
49c2o3fC_



not modelled 94.0 15 PDB header:transcription
Chain: C: PDB Molecule:putative hth-type transcriptional regulator ybbh;
PDBTitle: structural genomics, the crystal structure of the n-2 terminal domain of the putative transcriptional regulator3 ybbh from bacillus subtilis subsp. subtilis str. 168.
50d2o3fa1



not modelled 94.0 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:RpiR-like
51d1efaa1



not modelled 93.8 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
52d2bjca1



not modelled 93.7 12 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
53c2o8qA_



not modelled 93.5 10 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
54d1yfua1



not modelled 93.4 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
55c3h8uA_



not modelled 93.4 14 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
56c2q30C_



not modelled 93.3 10 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
57d1qpza1



not modelled 93.3 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
58c3bu7A_



not modelled 93.2 13 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
59d3bu7a1



not modelled 93.2 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
60c2gfnA_



not modelled 92.8 14 PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator pksa related protein;
PDBTitle: crystal structure of hth-type transcriptional regulator pksa related2 protein from rhodococcus sp. rha1
61d1o5ua_



not modelled 92.8 18 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Hypothetical protein TM1112
62c3l2hD_



not modelled 92.8 12 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
63c3on4D_



not modelled 92.8 9 PDB header:transcription
Chain: D: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of tetr transcriptional regulator from legionella2 pneumophila
64d1lr5a_



not modelled 92.6 7 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
65c3i7dB_



not modelled 92.6 6 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
66c3bcwB_



not modelled 92.4 9 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
67c3geuC_



not modelled 92.1 11 PDB header:cell adhesion
Chain: C: PDB Molecule:intercellular adhesion protein r;
PDBTitle: crystal structure of icar from staphylococcus aureus, a member of the2 tetracycline repressor protein family
68c1bdhA_



not modelled 92.1 13 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
69d1zvfa1



not modelled 92.1 14 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
70c3h5tA_



not modelled 91.9 33 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
71c2oa2A_



not modelled 91.9 8 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
72c1vi0B_



not modelled 91.8 14 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of a transcriptional regulator
73d1uika1



not modelled 91.8 11 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
74d1j5ya1



not modelled 91.7 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
75d1t56a1



not modelled 91.7 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
76d1x82a_



not modelled 91.6 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Glucose-6-phosphate isomerase, GPI
77d2gfna1



not modelled 91.5 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
78c2ibdB_



not modelled 91.5 9 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:possible transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulatory protein2 rha5900
79d2fbqa1



not modelled 91.5 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
80d1juha_



not modelled 91.5 13 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Quercetin 2,3-dioxygenase-like
81d2bnma2



not modelled 91.4 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:TM1459-like
82c3ht2A_



not modelled 91.3 10 PDB header:lyase
Chain: A: PDB Molecule:remf protein;
PDBTitle: zink containing polyketide cyclase remf from streptomyces2 resistomycificus
83c2hytA_



not modelled 91.2 5 PDB header:transcription
Chain: A: PDB Molecule:tetr-family transcriptional regulator;
PDBTitle: crystal structure of a tetr-family transcriptional regulator (eca1819)2 from pectobacterium atrosepticum at 1.64 a resolution
84d2pyta1



not modelled 91.1 15 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:EutQ-like
85d1j58a_



not modelled 91.0 19 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
86d2i10a1



not modelled 90.9 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
87d1jt6a1



not modelled 90.9 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
88c1jumB_



not modelled 90.9 8 PDB header:transcription
Chain: B: PDB Molecule:hypothetical transcriptional regulator in qaca
PDBTitle: crystal structure of the multidrug binding transcriptional2 repressor qacr bound to the natural drug berberine
89c3kjxD_



not modelled 90.7 22 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
90c3qbmA_



not modelled 90.7 8 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr transcriptional regulator;
PDBTitle: crystal structure of a tetr transcriptional regulator (caur_2221) from2 chloroflexus aurantiacus j-10-fl at 1.80 a resolution
91d2o7ta1



not modelled 90.7 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
92c3dpjB_



not modelled 90.5 9 PDB header:dna binding protein
Chain: B: PDB Molecule:transcription regulator, tetr family;
PDBTitle: the crystal structure of a tetr transcription regulator2 from silicibacter pomeroyi dss
93c1y9qA_



not modelled 90.5 8 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
94d1dgwa_



not modelled 90.4 12 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
95c3bruA_



not modelled 90.4 3 PDB header:transcription
Chain: A: PDB Molecule:regulatory protein, tetr family;
PDBTitle: crystal structure of regulatory protein tetr from rhodobacter2 sphaeroides
96c1zvvA_



not modelled 90.4 15 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
97d1uija1



not modelled 90.4 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Germin/Seed storage 7S protein
98c2qtqB_



not modelled 90.3 8 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: crystal structure of a predicted dna-binding transcriptional regulator2 (saro_1072) from novosphingobium aromaticivorans dsm at 1.85 a3 resolution
99d1zrra1



not modelled 90.3 16 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Acireductone dioxygenase
100c3lwjA_



not modelled 90.2 5 PDB header:transcription regulator
Chain: A: PDB Molecule:putative tetr-family transcriptional regulator;
PDBTitle: crystal structure of putative tetr-family transcriptional regulator2 (yp_752756.1) from syntrophomonas wolfei str. goettingen at 2.07 a3 resolution
101d2fq4a1



not modelled 90.2 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
102d1j3pa_



not modelled 90.1 9 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Glucose-6-phosphate isomerase, GPI
103d1sgma1



not modelled 90.1 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
104d1mkma1



not modelled 90.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
105c3anpD_



not modelled 90.0 13 PDB header:transcription
Chain: D: PDB Molecule:transcriptional repressor, tetr family;
PDBTitle: crystal structure of thermus thermophilus fadr, a tetr familly2 transcriptional repressor, in complex with lauroyl-coa.
106c3dcfB_



not modelled 89.9 9 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator of the tetr/acrr
PDBTitle: crystal structure of transcriptional regulator of the2 tetr/acrr family (yp_290855.1) from thermobifida fusca yx-3 er1 at 2.50 a resolution
107c2f07A_



not modelled 89.9 8 PDB header:transcription
Chain: A: PDB Molecule:yvdt;
PDBTitle: crystal structure of yvdt from bacillus subtilis
108c3b6aC_



not modelled 89.9 16 PDB header:transcription
Chain: C: PDB Molecule:actr protein;
PDBTitle: crystal structure of the streptomyces coelicolor tetr2 family protein actr in complex with actinorhodin
109d2gena1



not modelled 89.8 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
110c2genA_



not modelled 89.8 8 PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional regulator;
PDBTitle: structural genomics, the crystal structure of a probable2 transcriptional regulator from pseudomonas aeruginosa pao1
111d3c07a1



not modelled 89.6 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
112c2g3bB_



not modelled 89.4 18 PDB header:transcription
Chain: B: PDB Molecule:putative tetr-family transcriptional regulator;
PDBTitle: crystal structure of putative tetr-family transcriptional regulator2 from rhodococcus sp.
113c2bnoA_



not modelled 89.4 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
114c3f1bA_



not modelled 89.4 18 PDB header:transcription regulator
Chain: A: PDB Molecule:tetr-like transcriptional regulator;
PDBTitle: the crystal structure of a tetr-like transcriptional regulator from2 rhodococcus sp. rha1.
115c3e7qB_



not modelled 89.4 9 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: the crystal structure of the putative transcriptional regulator from2 pseudomonas aeruginosa pao1
116c2eh3A_



not modelled 89.4 5 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of aq_1058, a transcriptional regulator (terr/acrr2 family) from aquifex aeolicus vf5
117c2r0qF_



not modelled 89.3 7 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
118d2fx0a1



not modelled 89.3 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
119c2g7sA_



not modelled 89.2 7 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, tetr family;
PDBTitle: the crystal structure of transcriptional regulator, tetr family, from2 agrobacterium tumefaciens
120d1ui5a1



not modelled 89.2 10 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, 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