Secondary structure and disorder prediction

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Sequence		M	A	V	E	V	K	Y	V	V	I	R	E	G	E	E	K	M	S	F	T	S	K	K	E	A	D	A	Y	D	K	M	L	D	T	A	D	L	L	D	T	W	L	T	N	S	P	V	Q	M	E	D	E	Q	R	E	A	L	S	L	W
Secondary structure
SS confidence
Disorder		?	?																?	?	?																								?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.
Sequence		L	A	E	Q	K	D	V	L	S	T	I	L	K	T	G	K	L	P	S	P	Q	V	V	G	A	E	S	E	E	E	D	A	S	H	A	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 3erm chain D Region: 21 - 85 Aligned: 65 Modelled: 65 Confidence: 99.9% Identity: 23% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:uncharacterized conserved protein; PDBTitle: the crystal structure of a conserved protein with unknown function2 from pseudomonas syringae pv. tomato str. dc3000 Phyre2 PDB 1vf6 chain C Region: 30 - 73 Aligned: 44 Modelled: 44 Confidence: 52.6% Identity: 20% Fold: L27 domain Superfamily: L27 domain Family: L27 domain Phyre2 PDB 1vf6 chain C Region: 30 - 73 Aligned: 44 Modelled: 44 Confidence: 52.6% Identity: 20% PDB header:protein binding/protein transport Chain: C: PDB Molecule:maguk p55 subfamily member 5; PDBTitle: 2.1 angstrom crystal structure of the pals-1-l27n and patj2 l27 heterodimer complex Phyre2 PDB 1y76 chain B domain 1 Region: 30 - 73 Aligned: 44 Modelled: 44 Confidence: 51.2% Identity: 23% Fold: L27 domain Superfamily: L27 domain Family: L27 domain Phyre2 PDB 1r45 chain A Region: 18 - 76 Aligned: 47 Modelled: 58 Confidence: 45.5% Identity: 15% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: ADP-ribosylating toxins Phyre2 PDB 1puz chain A Region: 31 - 81 Aligned: 51 Modelled: 51 Confidence: 40.8% Identity: 12% Fold: YgfY-like Superfamily: YgfY-like Family: YgfY-like Phyre2 PDB 2jr5 chain A Region: 31 - 85 Aligned: 55 Modelled: 55 Confidence: 33.9% Identity: 9% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0350 protein vc_2471; PDBTitle: solution structure of upf0350 protein vc_2471. northeast2 structural genomics target vcr36 Phyre2 PDB 1x6i chain B Region: 31 - 85 Aligned: 55 Modelled: 55 Confidence: 32.5% Identity: 11% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ygfy; PDBTitle: crystal structure of ygfy from escherichia coli Phyre2 PDB 1fcd chain C domain 1 Region: 48 - 65 Aligned: 18 Modelled: 18 Confidence: 21.0% Identity: 11% Fold: Cytochrome c Superfamily: Cytochrome c Family: Two-domain cytochrome c Phyre2 PDB 3bw8 chain B Region: 19 - 76 Aligned: 46 Modelled: 53 Confidence: 18.7% Identity: 20% PDB header:transferase Chain: B: PDB Molecule:mono-adp-ribosyltransferase c3; PDBTitle: crystal structure of the clostridium limosum c3 exoenzyme Phyre2 PDB 1f46 chain A Region: 26 - 57 Aligned: 32 Modelled: 32 Confidence: 16.7% Identity: 13% Fold: TBP-like Superfamily: Cell-division protein ZipA, C-terminal domain Family: Cell-division protein ZipA, C-terminal domain Phyre2 PDB 2kub chain A Region: 29 - 65 Aligned: 37 Modelled: 37 Confidence: 16.5% Identity: 24% PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: solution structure of the alpha subdomain of the major non-repeat unit2 of fap1 fimbriae of streptococcus parasanguis Phyre2 PDB 2lm4 chain A Region: 31 - 84 Aligned: 54 Modelled: 54 Confidence: 16.3% Identity: 20% PDB header:protein binding Chain: A: PDB Molecule:succinate dehydrogenase assembly factor 2, mitochondrial; PDBTitle: solution nmr structure of mitochondrial succinate dehydrogenase2 assembly factor 2 from saccharomyces cerevisiae, northeast structural3 genomics consortium target yt682a Phyre2 PDB 3rgu chain A Region: 29 - 65 Aligned: 37 Modelled: 37 Confidence: 16.3% Identity: 24% PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: structure of fap-nra at ph 5.0 Phyre2 PDB 1fcd chain C domain 2 Region: 36 - 65 Aligned: 30 Modelled: 30 Confidence: 16.3% Identity: 20% Fold: Cytochrome c Superfamily: Cytochrome c Family: Two-domain cytochrome c Phyre2 PDB 1kx7 chain A Region: 48 - 65 Aligned: 18 Modelled: 18 Confidence: 16.1% Identity: 22% Fold: Cytochrome c Superfamily: Cytochrome c Family: monodomain cytochrome c Phyre2 PDB 1wh7 chain A Region: 16 - 38 Aligned: 23 Modelled: 23 Confidence: 14.8% Identity: 35% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1ojq chain A Region: 19 - 84 Aligned: 54 Modelled: 66 Confidence: 14.7% Identity: 15% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: ADP-ribosylating toxins Phyre2 PDB 1c75 chain A Region: 49 - 65 Aligned: 17 Modelled: 17 Confidence: 14.0% Identity: 41% Fold: Cytochrome c Superfamily: Cytochrome c Family: monodomain cytochrome c Phyre2 PDB 3cs5 chain B Region: 43 - 74 Aligned: 32 Modelled: 32 Confidence: 13.4% Identity: 22% PDB header:photosynthesis Chain: B: PDB Molecule:phycobilisome degradation protein nbla; PDBTitle: nbla protein from synechococcus elongatus pcc 7942 Phyre2 1 c3ermD_ 2 d1vf6c_ 3 c1vf6C_ 4 d1y76b1 5 d1r45a_ 6 d1puza_ 7 c2jr5A_ 8 c1x6iB_ 9 d1fcdc1 10 c3bw8B_ 11 d1f46a_ 12 c2kubA_ 13 c2lm4A_ 14 c3rguA_ 15 d1fcdc2 16 d1kx7a_ 17 d1wh7a_ 18 d1ojqa_ 19 d1c75a_ 20 c3cs5B_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 c3ermD_ 99.9 23 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:uncharacterized conserved protein; PDBTitle: the crystal structure of a conserved protein with unknown function2 from pseudomonas syringae pv. tomato str. dc3000 2 d1vf6c_ 52.6 20 Fold:L27 domain Superfamily:L27 domain Family:L27 domain 3 c1vf6C_ 52.6 20 PDB header:protein binding/protein transport Chain: C: PDB Molecule:maguk p55 subfamily member 5; PDBTitle: 2.1 angstrom crystal structure of the pals-1-l27n and patj2 l27 heterodimer complex 4 d1y76b1 51.2 23 Fold:L27 domain Superfamily:L27 domain Family:L27 domain 5 d1r45a_ 45.5 15 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:ADP-ribosylating toxins 6 d1puza_ 40.8 12 Fold:YgfY-like Superfamily:YgfY-like Family:YgfY-like 7 c2jr5A_ 33.9 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0350 protein vc_2471; PDBTitle: solution structure of upf0350 protein vc_2471. northeast2 structural genomics target vcr36 8 c1x6iB_ 32.5 11 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ygfy; PDBTitle: crystal structure of ygfy from escherichia coli 9 d1fcdc1 21.0 11 Fold:Cytochrome c Superfamily:Cytochrome c Family:Two-domain cytochrome c 10 c3bw8B_ 18.7 20 PDB header:transferase Chain: B: PDB Molecule:mono-adp-ribosyltransferase c3; PDBTitle: crystal structure of the clostridium limosum c3 exoenzyme 11 d1f46a_ 16.7 13 Fold:TBP-like Superfamily:Cell-division protein ZipA, C-terminal domain Family:Cell-division protein ZipA, C-terminal domain 12 c2kubA_ 16.5 24 PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: solution structure of the alpha subdomain of the major non-repeat unit2 of fap1 fimbriae of streptococcus parasanguis 13 c2lm4A_ 16.3 20 PDB header:protein binding Chain: A: PDB Molecule:succinate dehydrogenase assembly factor 2, mitochondrial; PDBTitle: solution nmr structure of mitochondrial succinate dehydrogenase2 assembly factor 2 from saccharomyces cerevisiae, northeast structural3 genomics consortium target yt682a 14 c3rguA_ 16.3 24 PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: structure of fap-nra at ph 5.0 15 d1fcdc2 16.3 20 Fold:Cytochrome c Superfamily:Cytochrome c Family:Two-domain cytochrome c 16 d1kx7a_ 16.1 22 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 17 d1wh7a_ 14.8 35 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 18 d1ojqa_ 14.7 15 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:ADP-ribosylating toxins 19 d1c75a_ 14.0 41 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 20 c3cs5B_ 13.4 22 PDB header:photosynthesis Chain: B: PDB Molecule:phycobilisome degradation protein nbla; PDBTitle: nbla protein from synechococcus elongatus pcc 7942 21 d1vima_ not modelled 12.2 8 Fold:SIS domain Superfamily:SIS domain Family:mono-SIS domain 22 d1cora_ not modelled 11.5 28 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 23 c2bovB_ not modelled 11.3 17 PDB header:transferase Chain: B: PDB Molecule:mono-adp-ribosyltransferase c3; PDBTitle: molecular recognition of an adp-ribosylating clostridium2 botulinum c3 exoenzyme by rala gtpase 24 d2c8aa1 not modelled 11.0 17 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:ADP-ribosylating toxins 25 d1lqta1 not modelled 9.9 24 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:C-terminal domain of adrenodoxin reductase-like 26 d1h1oa1 not modelled 8.3 22 Fold:Cytochrome c Superfamily:Cytochrome c Family:Two-domain cytochrome c 27 c1u6hB_ not modelled 8.3 40 PDB header:cell adhesion Chain: B: PDB Molecule:talin; PDBTitle: vinculin head (0-258) in complex with the talin vinculin2 binding site 2 (849-879) 28 c1qs2A_ not modelled 7.9 26 PDB header:toxin Chain: A: PDB Molecule:adp-ribosyltransferase; PDBTitle: crystal structure of vip2 with nad 29 d1urfa_ not modelled 6.6 22 Fold:Long alpha-hairpin Superfamily:HR1 repeat Family:HR1 repeat 30 c2c9eA_ not modelled 6.2 50 PDB header:photosynthesis Chain: A: PDB Molecule:peridinin-chlorophyll a protein; PDBTitle: peridinin-chlorophyll a protein, high-salt form 31 d351ca_ not modelled 6.0 28 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 32 c2d0sA_ not modelled 5.4 22 PDB header:electron transport Chain: A: PDB Molecule:cytochrome c; PDBTitle: crystal structure of the cytochrome c552 from moderate2 thermophilic bacterium, hydrogenophilus thermoluteolus 33 c2kr1A_ not modelled 5.4 10 PDB header:ligase Chain: A: PDB Molecule:ubiquitin protein ligase e3a; PDBTitle: solution nmr structure of zinc binding n-terminal domain of ubiquitin-2 protein ligase e3a from homo sapiens. northeast structural genomics3 consortium (nesg) target hr3662 34 c1skoA_ not modelled 5.2 23 PDB header:signaling protein Chain: A: PDB Molecule:mitogen-activated protein kinase kinase 1 PDBTitle: mp1-p14 complex 35 c1qs1D_ not modelled 5.1 24 PDB header:toxin Chain: D: PDB Molecule:adp-ribosyltransferase; PDBTitle: crystal structure of vegetative insecticidal protein2 (vip2)

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