Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	F	S	G	L	F	Q	R	K	S	D	A	P	V	T	T	P	A	E	L	A	D	A	I	G	L	S	Y	D	T	Y	T	G	K	Q	I	S	S	Q	R	A	M	R	L	T	A	V	F	S	C	V	R	V	L	A	E	S	V	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?					?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	L	P	C	N	L	Y	H	L	N	G	S	L	K	Q	R	A	T	G	E	R	L	H	K	L	I	S	T	H	P	N	G	Y	M	T	P	Q	E	F	W	E	L	V	V	T	C	L	C	L	R	G	N	F	Y	A	Y	K	V	K	A
Secondary structure
SS confidence
Disorder												?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.
Sequence		F	G	E	V	A	E	L	L	P	V	D	P	G	C	V	V	Y	A	L	G	R	C	Q	R	W	P	E	G	D	R	R	E	C	Y	S	A	R
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 3kdr chain C Region: 34 - 140 Aligned: 97 Modelled: 107 Confidence: 92.1% Identity: 13% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hk97 family phage portal protein; PDBTitle: the crystal structure of a hk97 family phage portal protein from2 corynebacterium diphtheriae to 2.9a Phyre2 PDB 3fo8 chain D Region: 114 - 148 Aligned: 35 Modelled: 35 Confidence: 16.1% Identity: 26% PDB header:viral protein Chain: D: PDB Molecule:tail sheath protein gp18; PDBTitle: crystal structure of the bacteriophage t4 tail sheath2 protein, protease resistant fragment gp18pr Phyre2 PDB 1c0m chain A domain 1 Region: 105 - 131 Aligned: 27 Modelled: 27 Confidence: 8.1% Identity: 15% Fold: SH3-like barrel Superfamily: DNA-binding domain of retroviral integrase Family: DNA-binding domain of retroviral integrase Phyre2 PDB 1hq0 chain A Region: 111 - 125 Aligned: 15 Modelled: 15 Confidence: 6.4% Identity: 27% Fold: CNF1/YfiH-like putative cysteine hydrolases Superfamily: CNF1/YfiH-like putative cysteine hydrolases Family: Type 1 cytotoxic necrotizing factor, catalytic domain Phyre2 PDB 3zrh chain A Region: 50 - 104 Aligned: 52 Modelled: 55 Confidence: 6.0% Identity: 17% PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin thioesterase zranb1; PDBTitle: crystal structure of the lys29, lys33-linkage-specific trabid otu2 deubiquitinase domain reveals an ankyrin-repeat ubiquitin binding3 domain (ankubd) Phyre2 PDB 3hjd chain A Region: 141 - 157 Aligned: 17 Modelled: 17 Confidence: 5.1% Identity: 41% PDB header:antimicrobial protein Chain: A: PDB Molecule:human neutrophil peptide 1; PDBTitle: x-ray structure of monomeric variant of hnp1 Phyre2 PDB 3hjd chain B Region: 141 - 157 Aligned: 17 Modelled: 17 Confidence: 5.1% Identity: 41% PDB header:antimicrobial protein Chain: B: PDB Molecule:human neutrophil peptide 1; PDBTitle: x-ray structure of monomeric variant of hnp1 Phyre2 1 c3kdrC_ 2 c3fo8D_ 3 d1c0ma1 4 d1hq0a_ 5 c3zrhA_ 6 c3hjdA_ 7 c3hjdB_

Detailed template information

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

1 c3kdrC_ 92.1 13 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hk97 family phage portal protein; PDBTitle: the crystal structure of a hk97 family phage portal protein from2 corynebacterium diphtheriae to 2.9a 2 c3fo8D_ 16.1 26 PDB header:viral protein Chain: D: PDB Molecule:tail sheath protein gp18; PDBTitle: crystal structure of the bacteriophage t4 tail sheath2 protein, protease resistant fragment gp18pr 3 d1c0ma1 8.1 15 Fold:SH3-like barrel Superfamily:DNA-binding domain of retroviral integrase Family:DNA-binding domain of retroviral integrase 4 d1hq0a_ 6.4 27 Fold:CNF1/YfiH-like putative cysteine hydrolases Superfamily:CNF1/YfiH-like putative cysteine hydrolases Family:Type 1 cytotoxic necrotizing factor, catalytic domain 5 c3zrhA_ 6.0 17 PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin thioesterase zranb1; PDBTitle: crystal structure of the lys29, lys33-linkage-specific trabid otu2 deubiquitinase domain reveals an ankyrin-repeat ubiquitin binding3 domain (ankubd) 6 c3hjdA_ 5.1 41 PDB header:antimicrobial protein Chain: A: PDB Molecule:human neutrophil peptide 1; PDBTitle: x-ray structure of monomeric variant of hnp1 7 c3hjdB_ 5.1 41 PDB header:antimicrobial protein Chain: B: PDB Molecule:human neutrophil peptide 1; PDBTitle: x-ray structure of monomeric variant of hnp1

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