Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	M	G	E	V	Q	S	L	P	S	A	G	L	H	P	A	L	Q	D	A	L	T	L	A	L	A	A	R	P	Q	E	K	A	P	G	R	Y	E	L	Q	G	D	N	I	F	M	N	V	M	T	F	N	T	Q	S	P	V	E	K
Secondary structure
SS confidence
Disorder		?	?	?	?																																																?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	A	E	L	H	E	Q	Y	I	D	I	Q	L	L	L	N	G	E	E	R	I	L	F	G	M	A	G	T	A	R	Q	C	E	E	F	H	H	E	D	D	Y	Q	L	C	S	T	I	D	N	E	Q	A	I	I	L	K	P	G	M	F
Secondary structure
SS confidence
Disorder																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.
Sequence		A	V	F	M	P	G	E	P	H	K	P	G	C	V	V	G	E	P	G	E	I	K	K	V	V	V	K	V	K	A	D	L	M	A
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

Rank Aligned region

PDB 1s4c chain A domain 1 Region: 1 - 136 Aligned: 135 Modelled: 136 Confidence: 100.0% Identity: 38% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: YhcH-like Phyre2 PDB 1yfu chain A domain 1 Region: 23 - 131 Aligned: 85 Modelled: 88 Confidence: 83.4% Identity: 18% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: 3-hydroxyanthranilic acid dioxygenase-like Phyre2 PDB 3cew chain A Region: 64 - 154 Aligned: 64 Modelled: 66 Confidence: 80.2% Identity: 23% 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 Phyre2 PDB 1v70 chain A Region: 40 - 149 Aligned: 81 Modelled: 85 Confidence: 74.2% Identity: 23% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: TM1287-like Phyre2 PDB 2i45 chain C Region: 61 - 131 Aligned: 47 Modelled: 47 Confidence: 60.1% Identity: 19% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis Phyre2 PDB 2oa2 chain A Region: 47 - 141 Aligned: 76 Modelled: 76 Confidence: 51.0% Identity: 14% 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 Phyre2 PDB 1o4t chain A Region: 46 - 148 Aligned: 76 Modelled: 78 Confidence: 47.6% Identity: 21% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: TM1287-like Phyre2 PDB 2arc chain A Region: 109 - 130 Aligned: 22 Modelled: 22 Confidence: 37.8% Identity: 32% Fold: Double-stranded beta-helix Superfamily: Regulatory protein AraC Family: Regulatory protein AraC Phyre2 PDB 1j3p chain A Region: 58 - 130 Aligned: 53 Modelled: 53 Confidence: 33.6% Identity: 15% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: Glucose-6-phosphate isomerase, GPI Phyre2 PDB 2xxz chain A Region: 111 - 130 Aligned: 20 Modelled: 20 Confidence: 33.5% Identity: 20% PDB header:oxidoreductase Chain: A: PDB Molecule:lysine-specific demethylase 6b; PDBTitle: crystal structure of the human jmjd3 jumonji domain Phyre2 PDB 2xue chain B Region: 112 - 130 Aligned: 19 Modelled: 19 Confidence: 32.3% Identity: 21% PDB header:oxidoreductase Chain: B: PDB Molecule:lysine-specific demethylase 6b; PDBTitle: crystal structure of jmjd3 Phyre2 PDB 2fqp chain D Region: 37 - 149 Aligned: 86 Modelled: 90 Confidence: 31.3% Identity: 16% 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 Phyre2 PDB 3d82 chain A Region: 41 - 131 Aligned: 62 Modelled: 60 Confidence: 31.2% Identity: 27% 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 Phyre2 PDB 3kgz chain A Region: 37 - 145 Aligned: 83 Modelled: 84 Confidence: 30.1% Identity: 20% 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 1zvf chain A domain 1 Region: 23 - 131 Aligned: 88 Modelled: 92 Confidence: 26.5% Identity: 13% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: 3-hydroxyanthranilic acid dioxygenase-like Phyre2 PDB 2ozi chain A Region: 39 - 149 Aligned: 85 Modelled: 89 Confidence: 24.7% Identity: 19% 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 Phyre2 PDB 2ozj chain B Region: 40 - 130 Aligned: 63 Modelled: 66 Confidence: 23.6% Identity: 29% 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 PDB 2gu9 chain B Region: 37 - 146 Aligned: 83 Modelled: 85 Confidence: 22.6% Identity: 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 Phyre2 PDB 2hdl chain A Region: 1 - 26 Aligned: 26 Modelled: 26 Confidence: 20.8% Identity: 31% PDB header:cytokine Chain: A: PDB Molecule:small inducible cytokine b14; PDBTitle: solution structure of brak/cxcl14 Phyre2 PDB 2pa7 chain A domain 1 Region: 43 - 131 Aligned: 85 Modelled: 89 Confidence: 19.7% Identity: 8% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: dTDP-sugar isomerase Phyre2 1 d1s4ca1 2 d1yfua1 3 c3cewA_ 4 d1v70a_ 5 c2i45C_ 6 c2oa2A_ 7 d1o4ta_ 8 d2arca_ 9 d1j3pa_ 10 c2xxzA_ 11 c2xueB_ 12 c2fqpD_ 13 c3d82A_ 14 c3kgzA_ 15 d1zvfa1 16 c2oziA_ 17 c2ozjB_ 18 c2gu9B_ 19 c2hdlA_ 20 d2pa7a1 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

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 d1s4ca1 100.0 38 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:YhcH-like 2 d1yfua1 83.4 18 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:3-hydroxyanthranilic acid dioxygenase-like 3 c3cewA_ 80.2 23 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 4 d1v70a_ 74.2 23 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like 5 c2i45C_ 60.1 19 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis 6 c2oa2A_ 51.0 14 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 7 d1o4ta_ 47.6 21 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like 8 d2arca_ 37.8 32 Fold:Double-stranded beta-helix Superfamily:Regulatory protein AraC Family:Regulatory protein AraC 9 d1j3pa_ 33.6 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Glucose-6-phosphate isomerase, GPI 10 c2xxzA_ 33.5 20 PDB header:oxidoreductase Chain: A: PDB Molecule:lysine-specific demethylase 6b; PDBTitle: crystal structure of the human jmjd3 jumonji domain 11 c2xueB_ 32.3 21 PDB header:oxidoreductase Chain: B: PDB Molecule:lysine-specific demethylase 6b; PDBTitle: crystal structure of jmjd3 12 c2fqpD_ 31.3 16 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 13 c3d82A_ 31.2 27 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 14 c3kgzA_ 30.1 20 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 15 d1zvfa1 26.5 13 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:3-hydroxyanthranilic acid dioxygenase-like 16 c2oziA_ 24.7 19 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 17 c2ozjB_ 23.6 29 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 18 c2gu9B_ 22.6 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 19 c2hdlA_ 20.8 31 PDB header:cytokine Chain: A: PDB Molecule:small inducible cytokine b14; PDBTitle: solution structure of brak/cxcl14 20 d2pa7a1 19.7 8 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:dTDP-sugar isomerase 21 d3dl3a1 not modelled 19.5 23 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:TehB-like 22 c2w2iC_ not modelled 16.6 25 PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate oxygenase; PDBTitle: crystal structure of the human 2-oxoglutarate oxygenase2 loc390245 23 d1vj2a_ not modelled 16.2 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1459-like 24 c3ht2A_ not modelled 16.0 25 PDB header:lyase Chain: A: PDB Molecule:remf protein; PDBTitle: zink containing polyketide cyclase remf from streptomyces2 resistomycificus 25 c2pyhB_ not modelled 15.9 26 PDB header:isomerase Chain: B: PDB Molecule:poly(beta-d-mannuronate) c5 epimerase 4; PDBTitle: azotobacter vinelandii mannuronan c-5 epimerase alge4 a-module2 complexed with mannuronan trisaccharide 26 c2r32A_ not modelled 15.9 26 PDB header:immune system Chain: A: PDB Molecule:gcn4-pii/tumor necrosis factor ligand PDBTitle: crystal structure of human gitrl variant 27 d3bb6a1 not modelled 15.7 35 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:TehB-like 28 d2bdra1 not modelled 15.1 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Ureidoglycolate hydrolase AllA 29 d1y9qa2 not modelled 14.6 22 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Probable transcriptional regulator VC1968, C-terminal domain 30 d1a6qa1 not modelled 14.4 19 Fold:Another 3-helical bundle Superfamily:Protein serine/threonine phosphatase 2C, C-terminal domain Family:Protein serine/threonine phosphatase 2C, C-terminal domain 31 c2q8eB_ not modelled 14.3 20 PDB header:oxidoreductase Chain: B: PDB Molecule:jmjc domain-containing histone demethylation PDBTitle: specificity and mechanism of jmjd2a, a trimethyllysine-2 specific histone demethylase 32 c2os2A_ not modelled 13.7 20 PDB header:oxidoreductase Chain: A: PDB Molecule:jmjc domain-containing histone demethylation protein 3a; PDBTitle: crystal structure of jmjd2a complexed with histone h3 peptide2 trimethylated at lys36 33 c3ebrA_ not modelled 13.6 16 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 34 c3opwA_ not modelled 13.5 25 PDB header:oxidoreductase Chain: A: PDB Molecule:dna damage-responsive transcriptional repressor rph1; PDBTitle: crystal structure of the rph1 catalytic core 35 d1j0sa_ not modelled 12.2 16 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 36 c3ibmB_ not modelled 12.2 14 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 37 d2es7a1 not modelled 12.2 14 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:HyaE-like 38 d2fcta1 not modelled 11.3 22 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:PhyH-like 39 c3h8uA_ not modelled 11.1 23 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 40 c2bx6A_ not modelled 9.7 12 PDB header:transduction protein Chain: A: PDB Molecule:xrp2 protein; PDBTitle: crystal structure of the human retinitis pigmentosa2 protein 2 (rp2) 41 c2pfwB_ not modelled 9.6 15 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 42 d1x82a_ not modelled 9.4 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Glucose-6-phosphate isomerase, GPI 43 c3jzvA_ not modelled 9.3 13 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. 44 d2f4pa1 not modelled 8.6 19 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like 45 d1rc6a_ not modelled 8.3 16 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like 46 c3emrA_ not modelled 8.1 13 PDB header:oxidoreductase Chain: A: PDB Molecule:ectd; PDBTitle: crystal structure analysis of the ectoine hydroxylase ectd from2 salibacillus salexigens 47 c2q30C_ not modelled 8.0 25 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 48 c3l2hD_ not modelled 7.7 17 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 49 d1xsqa_ not modelled 7.4 13 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Ureidoglycolate hydrolase AllA 50 c3fjsC_ not modelled 7.2 17 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 51 c2o8qA_ not modelled 6.9 30 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 52 c2opwA_ not modelled 6.4 9 PDB header:oxidoreductase Chain: A: PDB Molecule:phyhd1 protein; PDBTitle: crystal structure of human phytanoyl-coa dioxygenase phyhd1 (apo) 53 d1wzaa1 not modelled 6.3 13 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 54 c3jurA_ not modelled 6.1 7 PDB header:hydrolase Chain: A: PDB Molecule:exo-poly-alpha-d-galacturonosidase; PDBTitle: the crystal structure of a hyperthermoactive exopolygalacturonase from2 thermotoga maritima 55 c3gjbA_ not modelled 6.1 21 PDB header:biosynthetic protein Chain: A: PDB Molecule:cytc3; PDBTitle: cytc3 with fe(ii) and alpha-ketoglutarate 56 d2f2ha1 not modelled 6.0 18 Fold:Putative glucosidase YicI, C-terminal domain Superfamily:Putative glucosidase YicI, C-terminal domain Family:Putative glucosidase YicI, C-terminal domain 57 d1y3ta1 not modelled 5.7 16 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Quercetin 2,3-dioxygenase-like 58 c2yrvA_ not modelled 5.7 27 PDB header:transcription Chain: A: PDB Molecule:at-rich interactive domain-containing protein 4a; PDBTitle: solution structure of the rbb1nt domain of human2 rb(retinoblastoma)-binding protein 1 59 d2a1xa1 not modelled 5.5 15 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:PhyH-like 60 c2vpvA_ not modelled 5.2 10 PDB header:cell cycle Chain: A: PDB Molecule:protein mif2; PDBTitle: dimerization domain of mif2p

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

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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