Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	L	Y	Q	I	K	P	L	F	Q	S	L	L	R	P	T	M	F	W	L	Y	K	H	H	V	T	A	N	H	I	T	L	A	A	L	A	L	S	L	L	T	G	L	L	L	M	L	A	A	Q	P	I	L	F	L	L	L	P	I
Secondary structure
SS confidence
Disorder		?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	F	I	R	M	A	L	N	A	L	D	G	M	L	A	R	E	C	N	Q	Q	T	R	L	G	A	I	L	N	E	T	G	D	V	I	S	D	I	A	L	Y	L	P	F	L	F	L	P	E	S	N	A	S	L	V	I	L	M	L
Secondary structure
SS confidence
Disorder																				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	C	T	I	L	T	E	F	C	G	L	L	A	Q	T	I	N	G	V	R	S	Y	A	G	P	F	G	K	S	D	R	A	L	I	F	G	L	W	G	L	A	V	A	I	Y	P	Q	W	M	Q	W	N	N	L	L	W	S	I	A	S
Secondary structure
SS confidence
Disorder																			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.
Sequence		I	L	L	L	W	T	A	I	N	R	C	R	S	V	L	L	M	S	A	E	I
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 2rkh chain A Region: 63 - 96 Aligned: 34 Modelled: 34 Confidence: 27.5% Identity: 24% PDB header:transcription Chain: A: PDB Molecule:putative apha-like transcription factor; PDBTitle: crystal structure of a putative apha-like transcription factor2 (zp_00208345.1) from magnetospirillum magnetotacticum ms-1 at 2.00 a3 resolution Phyre2 PDB 3bj6 chain B Region: 3 - 37 Aligned: 35 Modelled: 35 Confidence: 17.4% Identity: 11% PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcription regulator sp03579 Phyre2 PDB 2voy chain G Region: 80 - 108 Aligned: 29 Modelled: 29 Confidence: 8.3% Identity: 21% PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 1q1f chain A Region: 11 - 73 Aligned: 63 Modelled: 63 Confidence: 6.0% Identity: 10% Fold: Globin-like Superfamily: Globin-like Family: Globins Phyre2 PDB 1bvp chain 1 domain 1 Region: 74 - 90 Aligned: 17 Modelled: 17 Confidence: 5.7% Identity: 29% Fold: A virus capsid protein alpha-helical domain Superfamily: A virus capsid protein alpha-helical domain Family: Orbivirus capsid Phyre2 PDB 2nvm chain A domain 1 Region: 2 - 25 Aligned: 24 Modelled: 24 Confidence: 5.4% Identity: 8% Fold: XisI-like Superfamily: XisI-like Family: XisI-like Phyre2 1 c2rkhA_ 2 c3bj6B_ 3 c2voyG_ 4 d1q1fa_ 5 d1bvp11 6 d2nvma1

Detailed template information

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

1 c2rkhA_ 27.5 24 PDB header:transcription Chain: A: PDB Molecule:putative apha-like transcription factor; PDBTitle: crystal structure of a putative apha-like transcription factor2 (zp_00208345.1) from magnetospirillum magnetotacticum ms-1 at 2.00 a3 resolution 2 c3bj6B_ 17.4 11 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcription regulator sp03579 3 c2voyG_ 8.3 21 PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 4 d1q1fa_ 6.0 10 Fold:Globin-like Superfamily:Globin-like Family:Globins 5 d1bvp11 5.7 29 Fold:A virus capsid protein alpha-helical domain Superfamily:A virus capsid protein alpha-helical domain Family:Orbivirus capsid 6 d2nvma1 5.4 8 Fold:XisI-like Superfamily:XisI-like Family:XisI-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