Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	A	E	F	M	V	I	C	K	K	I	L	F	R	N	C	V	I	V	S	L	F	V	F	T	Y	N	T	W	A	Q	C	N	N	N	I	K	I	M	R	K	Y	E	S	E	G	K	Y	T	V	R	N	L	V	K	N	K	A	I
Secondary structure
SS confidence
Disorder		?	?	?	?																														?	?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	L	E	L	A	E	I	Y	V	K	N	R	Y	G	Q	D	A	A	E	E	E	K	P	Y	E	I	T	E	L	T	T	S	W	V	V	E	G	T	I	H	S	D	Q	I	A	G	G	V	F	I	I	E	I	G	K	N	D	G	R	I
Secondary structure
SS confidence
Disorder																																								?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		L	N	F	G	H	G	K
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 3kk7 chain B Region: 27 - 87 Aligned: 61 Modelled: 61 Confidence: 51.3% Identity: 23% PDB header:cell invasion Chain: B: PDB Molecule:putative cell invasion protein with mac/perforin domain; PDBTitle: crystal structure of putative cell invasion protein with mac/perforin2 domain (np_812351.1) from bacteriodes thetaiotaomicron vpi-5482 at3 2.46 a resolution Phyre2 PDB 1f0c chain B Region: 109 - 126 Aligned: 18 Modelled: 18 Confidence: 25.0% Identity: 44% PDB header:viral protein Chain: B: PDB Molecule:ice inhibitor; PDBTitle: structure of the viral serpin crma Phyre2 PDB 2epg chain B Region: 102 - 126 Aligned: 25 Modelled: 25 Confidence: 24.3% Identity: 24% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ttha1785; PDBTitle: crystal structure of ttha1785 Phyre2 PDB 1uc2 chain A Region: 102 - 126 Aligned: 25 Modelled: 25 Confidence: 21.9% Identity: 24% Fold: Hypothetical protein PH1602 Superfamily: Hypothetical protein PH1602 Family: Hypothetical protein PH1602 Phyre2 PDB 2obk chain E Region: 98 - 121 Aligned: 19 Modelled: 24 Confidence: 18.7% Identity: 32% PDB header:structural genomics, unknown function Chain: E: PDB Molecule:selt/selw/selh selenoprotein domain; PDBTitle: x-ray structure of the putative se binding protein from pseudomonas2 fluorescens. northeast structural genomics consortium target plr6. Phyre2 PDB 2fa8 chain A domain 1 Region: 98 - 121 Aligned: 19 Modelled: 24 Confidence: 18.2% Identity: 37% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Selenoprotein W-related Phyre2 PDB 2r32 chain A Region: 50 - 126 Aligned: 71 Modelled: 75 Confidence: 15.0% Identity: 23% PDB header:immune system Chain: A: PDB Molecule:gcn4-pii/tumor necrosis factor ligand PDBTitle: crystal structure of human gitrl variant Phyre2 PDB 1ibx chain A Region: 78 - 92 Aligned: 15 Modelled: 15 Confidence: 12.4% Identity: 13% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: CAD domain Phyre2 PDB 3dex chain A Region: 94 - 121 Aligned: 23 Modelled: 28 Confidence: 11.6% Identity: 26% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sav_2001; PDBTitle: crystal structure of sav_2001 protein from streptomyces2 avermitilis, northeast structural genomics consortium3 target svr107. Phyre2 PDB 3c0n chain A domain 1 Region: 84 - 98 Aligned: 15 Modelled: 15 Confidence: 11.3% Identity: 33% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: Aerolysin/Pertussis toxin (APT) domain Phyre2 PDB 1ept chain A Region: 74 - 103 Aligned: 30 Modelled: 30 Confidence: 11.3% Identity: 23% PDB header:hydrolase (serine protease) Chain: A: PDB Molecule:porcine e-trypsin; PDBTitle: refined 1.8 angstroms resolution crystal structure of2 porcine epsilon-trypsin Phyre2 PDB 1tm9 chain A Region: 35 - 74 Aligned: 40 Modelled: 40 Confidence: 10.8% Identity: 28% Fold: Hypothetical protein MG354 Superfamily: Hypothetical protein MG354 Family: Hypothetical protein MG354 Phyre2 PDB 2gvs chain A Region: 28 - 52 Aligned: 25 Modelled: 25 Confidence: 10.8% Identity: 52% PDB header:lipid binding protein Chain: A: PDB Molecule:chemosensory protein csp-sg4; PDBTitle: nmr solution structure of cspsg4 Phyre2 PDB 2oai chain A domain 1 Region: 81 - 98 Aligned: 18 Modelled: 18 Confidence: 10.1% Identity: 28% Fold: FAD-binding/transporter-associated domain-like Superfamily: FAD-binding/transporter-associated domain-like Family: CorC/HlyC domain-like Phyre2 PDB 2ojl chain B Region: 98 - 121 Aligned: 19 Modelled: 24 Confidence: 9.6% Identity: 37% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of q7waf1_borpa from bordetella parapertussis.2 northeast structural genomics target bpr68. Phyre2 PDB 2p0g chain B Region: 94 - 121 Aligned: 23 Modelled: 28 Confidence: 9.4% Identity: 30% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:selenoprotein w-related protein; PDBTitle: crystal structure of selenoprotein w-related protein from2 vibrio cholerae. northeast structural genomics target vcr75 Phyre2 PDB 2npb chain A Region: 90 - 122 Aligned: 28 Modelled: 33 Confidence: 8.9% Identity: 14% PDB header:oxidoreductase Chain: A: PDB Molecule:selenoprotein w; PDBTitle: nmr solution structure of mouse selw Phyre2 PDB 3lzn chain A Region: 84 - 110 Aligned: 27 Modelled: 27 Confidence: 8.3% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:p19 protein; PDBTitle: crystal structure analysis of the apo p19 protein from campylobacter2 jejuni at 1.59 a at ph 9 Phyre2 PDB 2v31 chain A Region: 66 - 110 Aligned: 44 Modelled: 45 Confidence: 7.6% Identity: 20% PDB header:ligase Chain: A: PDB Molecule:ubiquitin-activating enzyme e1 x; PDBTitle: structure of first catalytic cysteine half-domain of mouse2 ubiquitin-activating enzyme Phyre2 PDB 3bq9 chain A Region: 13 - 22 Aligned: 10 Modelled: 10 Confidence: 7.5% Identity: 60% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted rossmann fold nucleotide-binding domain- PDBTitle: crystal structure of predicted nucleotide-binding protein from2 idiomarina baltica os145 Phyre2 1 c3kk7B_ 2 c1f0cB_ 3 c2epgB_ 4 d1uc2a_ 5 c2obkE_ 6 d2fa8a1 7 c2r32A_ 8 d1ibxa_ 9 c3dexA_ 10 d3c0na1 11 c1eptA_ 12 d1tm9a_ 13 c2gvsA_ 14 d2oaia1 15 c2ojlB_ 16 c2p0gB_ 17 c2npbA_ 18 c3lznA_ 19 c2v31A_ 20 c3bq9A_ 21 22 23 24 25

Detailed template information

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

1 c3kk7B_ 51.3 23 PDB header:cell invasion Chain: B: PDB Molecule:putative cell invasion protein with mac/perforin domain; PDBTitle: crystal structure of putative cell invasion protein with mac/perforin2 domain (np_812351.1) from bacteriodes thetaiotaomicron vpi-5482 at3 2.46 a resolution 2 c1f0cB_ 25.0 44 PDB header:viral protein Chain: B: PDB Molecule:ice inhibitor; PDBTitle: structure of the viral serpin crma 3 c2epgB_ 24.3 24 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ttha1785; PDBTitle: crystal structure of ttha1785 4 d1uc2a_ 21.9 24 Fold:Hypothetical protein PH1602 Superfamily:Hypothetical protein PH1602 Family:Hypothetical protein PH1602 5 c2obkE_ 18.7 32 PDB header:structural genomics, unknown function Chain: E: PDB Molecule:selt/selw/selh selenoprotein domain; PDBTitle: x-ray structure of the putative se binding protein from pseudomonas2 fluorescens. northeast structural genomics consortium target plr6. 6 d2fa8a1 18.2 37 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Selenoprotein W-related 7 c2r32A_ 15.0 23 PDB header:immune system Chain: A: PDB Molecule:gcn4-pii/tumor necrosis factor ligand PDBTitle: crystal structure of human gitrl variant 8 d1ibxa_ 12.4 13 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:CAD domain 9 c3dexA_ 11.6 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sav_2001; PDBTitle: crystal structure of sav_2001 protein from streptomyces2 avermitilis, northeast structural genomics consortium3 target svr107. 10 d3c0na1 11.3 33 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Aerolysin/Pertussis toxin (APT) domain 11 c1eptA_ 11.3 23 PDB header:hydrolase (serine protease) Chain: A: PDB Molecule:porcine e-trypsin; PDBTitle: refined 1.8 angstroms resolution crystal structure of2 porcine epsilon-trypsin 12 d1tm9a_ 10.8 28 Fold:Hypothetical protein MG354 Superfamily:Hypothetical protein MG354 Family:Hypothetical protein MG354 13 c2gvsA_ 10.8 52 PDB header:lipid binding protein Chain: A: PDB Molecule:chemosensory protein csp-sg4; PDBTitle: nmr solution structure of cspsg4 14 d2oaia1 10.1 28 Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CorC/HlyC domain-like 15 c2ojlB_ 9.6 37 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of q7waf1_borpa from bordetella parapertussis.2 northeast structural genomics target bpr68. 16 c2p0gB_ 9.4 30 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:selenoprotein w-related protein; PDBTitle: crystal structure of selenoprotein w-related protein from2 vibrio cholerae. northeast structural genomics target vcr75 17 c2npbA_ 8.9 14 PDB header:oxidoreductase Chain: A: PDB Molecule:selenoprotein w; PDBTitle: nmr solution structure of mouse selw 18 c3lznA_ 8.3 22 PDB header:transport protein Chain: A: PDB Molecule:p19 protein; PDBTitle: crystal structure analysis of the apo p19 protein from campylobacter2 jejuni at 1.59 a at ph 9 19 c2v31A_ 7.6 20 PDB header:ligase Chain: A: PDB Molecule:ubiquitin-activating enzyme e1 x; PDBTitle: structure of first catalytic cysteine half-domain of mouse2 ubiquitin-activating enzyme 20 c3bq9A_ 7.5 60 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted rossmann fold nucleotide-binding domain- PDBTitle: crystal structure of predicted nucleotide-binding protein from2 idiomarina baltica os145 21 c2latA_ not modelled 6.6 46 PDB header:membrane protein Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein PDBTitle: solution structure of a human minimembrane protein ost4 22 d2p13a1 not modelled 6.4 22 Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CorC/HlyC domain-like 23 c2hgoA_ not modelled 5.2 33 PDB header:toxin Chain: A: PDB Molecule:cassiicolin; PDBTitle: nmr structure of cassiicolin 24 c2o62A_ not modelled 5.0 19 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a protein with unknown function from duf35982 family (npun_r4044) from nostoc punctiforme pcc 73102 at 1.75 a3 resolution 25 c3iufA_ not modelled 5.0 43 PDB header:protein binding Chain: A: PDB Molecule:zinc finger protein ubi-d4; PDBTitle: crystal structure of the c2h2-type zinc finger domain of2 human ubi-d4

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