Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	T	Y	S	I	T	L	P	W	P	P	S	N	N	R	Y	Y	R	H	N	R	G	R	T	H	V	S	A	E	G	Q	A	Y	R	D	N	V	A	R	I	I	K	N	A	M	L	D	I	G	L	A	M	P	V	K	I	R	I	E
Secondary structure
SS confidence
Disorder		?	?																					?																							?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	H	M	P	D	R	R	R	R	D	L	D	N	L	Q	K	A	A	F	D	A	L	T	K	A	G	F	W	L	D	D	A	Q	V	V	D	Y	R	V	V	K	M	P	V	T	K	G	G	R	L	E	L	T	I	T	E	M	G	N	E
Secondary structure
SS confidence
Disorder																																																										?	?	?	?
Disorder confidence
Sequence
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 1q8r chain A Region: 1 - 118 Aligned: 118 Modelled: 118 Confidence: 100.0% Identity: 100% Fold: Bacillus chorismate mutase-like Superfamily: Holliday junction resolvase RusA Family: Holliday junction resolvase RusA Phyre2 PDB 1xrs chain B domain 2 Region: 3 - 11 Aligned: 9 Modelled: 9 Confidence: 18.0% Identity: 44% Fold: Dodecin subunit-like Superfamily: D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain Family: D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain Phyre2 PDB 1s1h chain E Region: 71 - 85 Aligned: 15 Modelled: 15 Confidence: 13.2% Identity: 47% PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein s2; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. Phyre2 PDB 2az0 chain A domain 1 Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 12.5% Identity: 50% Fold: ROP-like Superfamily: FHV B2 protein-like Family: FHV B2 protein-like Phyre2 PDB 1pkp chain A domain 1 Region: 73 - 85 Aligned: 13 Modelled: 13 Confidence: 12.3% Identity: 38% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 2zkq chain E Region: 71 - 85 Aligned: 15 Modelled: 15 Confidence: 9.2% Identity: 53% PDB header:ribosomal protein/rna Chain: E: PDB Molecule:rna expansion segment es6 part ii; 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 3emi chain A Region: 75 - 89 Aligned: 14 Modelled: 15 Confidence: 8.6% Identity: 43% PDB header:cell adhesion Chain: A: PDB Molecule:hia (adhesin); PDBTitle: crystal structure of hia 307-422 non-adhesive domain Phyre2 PDB 2qal chain E domain 1 Region: 73 - 85 Aligned: 13 Modelled: 13 Confidence: 7.6% Identity: 31% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 2vnv chain C Region: 83 - 115 Aligned: 33 Modelled: 33 Confidence: 7.2% Identity: 9% PDB header:sugar-binding protein Chain: C: PDB Molecule:bcla; PDBTitle: crystal structure of bcla lectin from burkholderia2 cenocepacia in complex with alpha-methyl-mannoside at 1.73 angstrom resolution Phyre2 PDB 1w91 chain A domain 1 Region: 2 - 61 Aligned: 60 Modelled: 60 Confidence: 7.1% Identity: 12% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: Composite domain of glycosyl hydrolase families 5, 30, 39 and 51 Phyre2 PDB 2xzm chain E Region: 71 - 83 Aligned: 13 Modelled: 13 Confidence: 6.9% Identity: 38% PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5 containing protein; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 2uub chain E domain 1 Region: 73 - 83 Aligned: 11 Modelled: 11 Confidence: 6.2% Identity: 36% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 1 d1q8ra_ 2 d1xrsb2 3 c1s1hE_ 4 d2az0a1 5 d1pkpa1 6 c2zkqe_ 7 c3emiA_ 8 d2qale1 9 c2vnvC_ 10 d1w91a1 11 c2xzmE_ 12 d2uube1

Detailed template information

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

1 d1q8ra_ 100.0 100 Fold:Bacillus chorismate mutase-like Superfamily:Holliday junction resolvase RusA Family:Holliday junction resolvase RusA 2 d1xrsb2 18.0 44 Fold:Dodecin subunit-like Superfamily:D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain Family:D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain 3 c1s1hE_ 13.2 47 PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein s2; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. 4 d2az0a1 12.5 50 Fold:ROP-like Superfamily:FHV B2 protein-like Family:FHV B2 protein-like 5 d1pkpa1 12.3 38 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 6 c2zkqe_ 9.2 53 PDB header:ribosomal protein/rna Chain: E: PDB Molecule:rna expansion segment es6 part ii; 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 7 c3emiA_ 8.6 43 PDB header:cell adhesion Chain: A: PDB Molecule:hia (adhesin); PDBTitle: crystal structure of hia 307-422 non-adhesive domain 8 d2qale1 7.6 31 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 9 c2vnvC_ 7.2 9 PDB header:sugar-binding protein Chain: C: PDB Molecule:bcla; PDBTitle: crystal structure of bcla lectin from burkholderia2 cenocepacia in complex with alpha-methyl-mannoside at 1.73 angstrom resolution 10 d1w91a1 7.1 12 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:Composite domain of glycosyl hydrolase families 5, 30, 39 and 51 11 c2xzmE_ 6.9 38 PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5 containing protein; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 12 d2uube1 6.2 36 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components

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