Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	W	Y	M	G	K	Y	I	R	P	L	S	D	A	V	F	T	I	A	S	D	D	L	W	I	E	S	L	A	I	Q	Q	L	H	T	T	A	N	L	P	N	M	Q	R	V	V	G	M	P	D	L	H	P	G	R	G	Y	P	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?				?	?												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.
Sequence		G	A	A	F	F	S	V	G	R	F	Y	P	A	R	R	R	G	N	G	A	G	N	R	N	G	P	L	L
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 1uc2 chain A Region: 3 - 83 Aligned: 81 Modelled: 81 Confidence: 99.9% Identity: 26% Fold: Hypothetical protein PH1602 Superfamily: Hypothetical protein PH1602 Family: Hypothetical protein PH1602 Phyre2 PDB 2epg chain B Region: 3 - 83 Aligned: 79 Modelled: 81 Confidence: 99.9% Identity: 24% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ttha1785; PDBTitle: crystal structure of ttha1785 Phyre2 PDB 1wkq chain A Region: 52 - 71 Aligned: 20 Modelled: 20 Confidence: 24.4% Identity: 30% Fold: Cytidine deaminase-like Superfamily: Cytidine deaminase-like Family: Deoxycytidylate deaminase-like Phyre2 PDB 1w96 chain A domain 2 Region: 52 - 58 Aligned: 7 Modelled: 7 Confidence: 16.1% Identity: 29% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 1ulz chain A domain 2 Region: 52 - 58 Aligned: 7 Modelled: 7 Confidence: 15.1% Identity: 57% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 2j9g chain A domain 2 Region: 52 - 58 Aligned: 7 Modelled: 7 Confidence: 14.7% Identity: 57% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 1el6 chain A Region: 31 - 76 Aligned: 44 Modelled: 46 Confidence: 11.1% Identity: 20% Fold: Baseplate structural protein gp11 Superfamily: Baseplate structural protein gp11 Family: Baseplate structural protein gp11 Phyre2 PDB 1j8y chain F domain 2 Region: 8 - 43 Aligned: 34 Modelled: 36 Confidence: 10.1% Identity: 15% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nitrogenase iron protein-like Phyre2 PDB 1jql chain B Region: 4 - 38 Aligned: 35 Modelled: 35 Confidence: 6.4% Identity: 9% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 2zkq chain M Region: 2 - 50 Aligned: 49 Modelled: 49 Confidence: 6.3% Identity: 8% PDB header:ribosomal protein/rna Chain: M: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 2hxv chain A domain 2 Region: 57 - 71 Aligned: 15 Modelled: 15 Confidence: 6.3% Identity: 33% Fold: Cytidine deaminase-like Superfamily: Cytidine deaminase-like Family: Deoxycytidylate deaminase-like Phyre2 PDB 2b7f chain D Region: 4 - 41 Aligned: 38 Modelled: 38 Confidence: 5.4% Identity: 21% PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:htlv protease; PDBTitle: crystal structure of human t-cell leukemia virus protease, a novel2 target for anti-cancer design Phyre2 PDB 1wwr chain A domain 1 Region: 57 - 71 Aligned: 15 Modelled: 15 Confidence: 5.3% Identity: 27% Fold: Cytidine deaminase-like Superfamily: Cytidine deaminase-like Family: Deoxycytidylate deaminase-like Phyre2 1 d1uc2a_ 2 c2epgB_ 3 d1wkqa_ 4 d1w96a2 5 d1ulza2 6 d2j9ga2 7 d1el6a_ 8 d1j8yf2 9 d1jqlb_ 10 c2zkqm_ 11 d2hxva2 12 c2b7fD_ 13 d1wwra1

Detailed template information

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

1 d1uc2a_ 99.9 26 Fold:Hypothetical protein PH1602 Superfamily:Hypothetical protein PH1602 Family:Hypothetical protein PH1602 2 c2epgB_ 99.9 24 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ttha1785; PDBTitle: crystal structure of ttha1785 3 d1wkqa_ 24.4 30 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like 4 d1w96a2 16.1 29 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 5 d1ulza2 15.1 57 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 6 d2j9ga2 14.7 57 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 7 d1el6a_ 11.1 20 Fold:Baseplate structural protein gp11 Superfamily:Baseplate structural protein gp11 Family:Baseplate structural protein gp11 8 d1j8yf2 10.1 15 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 9 d1jqlb_ 6.4 9 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 10 c2zkqm_ 6.3 8 PDB header:ribosomal protein/rna Chain: M: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 11 d2hxva2 6.3 33 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like 12 c2b7fD_ 5.4 21 PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:htlv protease; PDBTitle: crystal structure of human t-cell leukemia virus protease, a novel2 target for anti-cancer design 13 d1wwra1 5.3 27 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like

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