Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	S	T	I	W	L	A	L	A	L	V	L	V	L	E	G	L	G	P	M	L	Y	P	K	A	W	K	K	M	I	S	A	M	T	N	L	P	D	N	I	L	R	R	F	G	G	G	L	V	V	A	G	V	V	V	Y	Y	M	L
Secondary structure
SS confidence
Disorder		?	?	?																																	?	?
Disorder confidence
		.	.	.	.	.
Sequence		R	K	T	I	G
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 2fd5 chain A domain 2 Region: 22 - 57 Aligned: 36 Modelled: 36 Confidence: 8.4% Identity: 8% Fold: Tetracyclin repressor-like, C-terminal domain Superfamily: Tetracyclin repressor-like, C-terminal domain Family: Tetracyclin repressor-like, C-terminal domain Phyre2 PDB 1z21 chain A domain 1 Region: 11 - 31 Aligned: 21 Modelled: 21 Confidence: 6.4% Identity: 38% Fold: Type III secretion system domain Superfamily: Type III secretion system domain Family: YopR Core Phyre2 PDB 1yfn chain G Region: 23 - 30 Aligned: 8 Modelled: 8 Confidence: 5.7% Identity: 50% PDB header:protein binding Chain: G: PDB Molecule:sigma-e factor negative regulatory protein; PDBTitle: versatile modes of peptide recognition by the aaa+ adaptor2 protein sspb- the crystal structure of a sspb-rsea complex Phyre2 PDB 1emz chain A Region: 14 - 27 Aligned: 14 Modelled: 14 Confidence: 5.3% Identity: 29% 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 1 d2fd5a2 2 d1z21a1 3 c1yfnG_ 4 c1emzA_

Detailed template information

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

1 d2fd5a2 8.4 8 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 2 d1z21a1 6.4 38 Fold:Type III secretion system domain Superfamily:Type III secretion system domain Family:YopR Core 3 c1yfnG_ 5.7 50 PDB header:protein binding Chain: G: PDB Molecule:sigma-e factor negative regulatory protein; PDBTitle: versatile modes of peptide recognition by the aaa+ adaptor2 protein sspb- the crystal structure of a sspb-rsea complex 4 c1emzA_ 5.3 29 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

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