Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	K	R	V	S	M	N	E	W	I	M	P	V	L	I	Y	A	Q	N	T	M	L	N	L	K	L	T	I	P	G	L	R	A	E	R	K	V	I	S	K	L	S	P	R	S	Y	L	K	R	S	L	I	P	I	K	K	I	E	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																							?				?										?													?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.
Sequence		K	I	D	S	V	E	C	I	S	I	H	R	V	D	S
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 3gla chain A Region: 9 - 35 Aligned: 27 Modelled: 27 Confidence: 20.4% Identity: 22% PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis Phyre2 PDB 1bdf chain A domain 1 Region: 6 - 66 Aligned: 61 Modelled: 61 Confidence: 13.7% Identity: 21% Fold: DCoH-like Superfamily: RBP11-like subunits of RNA polymerase Family: RNA polymerase alpha subunit dimerisation domain Phyre2 PDB 2kcd chain A Region: 11 - 25 Aligned: 15 Modelled: 15 Confidence: 12.7% Identity: 27% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ssp0047; PDBTitle: solution nmr structure of ssp0047 from staphylococcus2 saprophyticus. northeast structural genomics consortium3 target syr6. Phyre2 PDB 2pq4 chain B Region: 41 - 49 Aligned: 9 Modelled: 9 Confidence: 6.6% Identity: 67% PDB header:chaperone/oxidoreductase Chain: B: PDB Molecule:periplasmic nitrate reductase precursor; PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide Phyre2 PDB 1avy chain A Region: 55 - 65 Aligned: 11 Modelled: 11 Confidence: 6.2% Identity: 73% PDB header:coiled coil Chain: A: PDB Molecule:fibritin; PDBTitle: fibritin deletion mutant m (bacteriophage t4) Phyre2 1 c3glaA_ 2 d1bdfa1 3 c2kcdA_ 4 c2pq4B_ 5 c1avyA_

Detailed template information

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

1 c3glaA_ 20.4 22 PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis 2 d1bdfa1 13.7 21 Fold:DCoH-like Superfamily:RBP11-like subunits of RNA polymerase Family:RNA polymerase alpha subunit dimerisation domain 3 c2kcdA_ 12.7 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ssp0047; PDBTitle: solution nmr structure of ssp0047 from staphylococcus2 saprophyticus. northeast structural genomics consortium3 target syr6. 4 c2pq4B_ 6.6 67 PDB header:chaperone/oxidoreductase Chain: B: PDB Molecule:periplasmic nitrate reductase precursor; PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide 5 c1avyA_ 6.2 73 PDB header:coiled coil Chain: A: PDB Molecule:fibritin; PDBTitle: fibritin deletion mutant m (bacteriophage t4)

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