Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.
Sequence		M	T	F	A	E	L	G	M	A	F	W	H	D	L	A	A	P	V	I	A	G	I	L	A	S	M	I	V	N	W	L	N	K	R	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 1emz chain A Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 14.3% Identity: 62% PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein e1; PDBTitle: solution structure of fragment (350-370) of the2 transmembrane domain of hepatitis c envelope glycoprotein3 e1 Phyre2 PDB 2hg5 chain D Region: 18 - 35 Aligned: 18 Modelled: 18 Confidence: 13.1% Identity: 22% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 2fok chain A domain 2 Region: 24 - 33 Aligned: 10 Modelled: 10 Confidence: 7.1% Identity: 60% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Restriction endonuclease FokI, N-terminal (recognition) domain Phyre2 PDB 3qfh chain E Region: 14 - 27 Aligned: 14 Modelled: 14 Confidence: 7.1% Identity: 50% PDB header:hydrolase Chain: E: PDB Molecule:epidermin leader peptide processing serine protease epip; PDBTitle: 2.05 angstrom resolution crystal structure of epidermin leader peptide2 processing serine protease (epip) from staphylococcus aureus. Phyre2 PDB 1kve chain A Region: 16 - 32 Aligned: 17 Modelled: 17 Confidence: 6.9% Identity: 47% PDB header:toxin Chain: A: PDB Molecule:smk toxin; PDBTitle: killer toxin from halotolerant yeast Phyre2 PDB 3a9f chain A Region: 24 - 34 Aligned: 11 Modelled: 11 Confidence: 6.7% Identity: 36% PDB header:electron transport Chain: A: PDB Molecule:cytochrome c; PDBTitle: crystal structure of the c-terminal domain of cytochrome cz2 from chlorobium tepidum Phyre2 PDB 2b6n chain A Region: 14 - 27 Aligned: 14 Modelled: 14 Confidence: 6.4% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:proteinase k; PDBTitle: the 1.8 a crystal structure of a proteinase k like enzyme from a2 psychrotroph serratia species Phyre2 PDB 2b0l chain A domain 1 Region: 20 - 33 Aligned: 14 Modelled: 14 Confidence: 6.3% Identity: 57% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: CodY HTH domain Phyre2 1 c1emzA_ 2 c2hg5D_ 3 d2foka2 4 c3qfhE_ 5 c1kveA_ 6 c3a9fA_ 7 c2b6nA_ 8 d2b0la1

Detailed template information

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

1 c1emzA_ 14.3 62 PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein e1; PDBTitle: solution structure of fragment (350-370) of the2 transmembrane domain of hepatitis c envelope glycoprotein3 e1 2 c2hg5D_ 13.1 22 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 3 d2foka2 7.1 60 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Restriction endonuclease FokI, N-terminal (recognition) domain 4 c3qfhE_ 7.1 50 PDB header:hydrolase Chain: E: PDB Molecule:epidermin leader peptide processing serine protease epip; PDBTitle: 2.05 angstrom resolution crystal structure of epidermin leader peptide2 processing serine protease (epip) from staphylococcus aureus. 5 c1kveA_ 6.9 47 PDB header:toxin Chain: A: PDB Molecule:smk toxin; PDBTitle: killer toxin from halotolerant yeast 6 c3a9fA_ 6.7 36 PDB header:electron transport Chain: A: PDB Molecule:cytochrome c; PDBTitle: crystal structure of the c-terminal domain of cytochrome cz2 from chlorobium tepidum 7 c2b6nA_ 6.4 36 PDB header:hydrolase Chain: A: PDB Molecule:proteinase k; PDBTitle: the 1.8 a crystal structure of a proteinase k like enzyme from a2 psychrotroph serratia species 8 d2b0la1 6.3 57 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CodY HTH 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

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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