Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	T	I	T	L	L	C	I	A	L	A	G	V	I	M	L	L	L	L	V	I	K	A	K	V	Q	P	F	V	A	L	L	L	V	S	L	L	V	A	L	A	A	G	I	P	A	G	E	V	G	K	V	M	I	A	G	M	G	G
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	G	S	V	T	I	I	I	G	L	G	A	M	L	G	R	M	I	E	H	S	G	G	A	E	S	L	A	N	Y	F	S	R	K	L	G	D	K	R	T	I	A	A	L	T	L	A	A	F	F	L	G	I	P	V	F	F	D	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	F	I	I	L	A	P	I	I	Y	G	F	A	K	V	A	K	I	S	P	L	K	F	G	L	P	V	A	G	I	M	L	T	V	H	V	A	V	P	P	H	P	G	P	V	A	A	A	G	L	L	H	A	D	I	G	W	L	T	I
Secondary structure
SS confidence
Disorder																	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	G	I	A	I	S	I	P	V	G	V	V	G	Y	F	A	A	K	I	I	N	K	R	Q	Y	A	M	S	V	E	V	L	E	Q	M	Q	L	A	P	A	S	E	E	G	A	T	K	L	S	D	K	I	N	P	P	G	V	A	L	V
Secondary structure
SS confidence
Disorder																								?			?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	S	L	I	V	I	P	I	A	I	I	M	A	G	T	V	S	A	T	L	M	P	P	S	H	P	L	L	G	T	L	Q	L	I	G	S	P	M	V	A	L	M	I	A	L	V	L	A	F	W	L	L	A	L	R	R	G	W	S	L
Secondary structure
SS confidence
Disorder																				?	?																																		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		Q	H	T	S	D	I	M	G	S	A	L	P	T	A	A	V	V	I	L	V	T	G	A	G	G	V	F	G	K	V	L	V	E	S	G	V	G	K	A	L	A	N	M	L	Q	M	I	D	L	P	L	L	P	A	A	F	I	I	S	L
Secondary structure
SS confidence
Disorder																																																?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		A	L	R	A	S	Q	G	S	A	T	V	A	I	L	T	T	G	G	L	L	S	E	A	V	M	G	L	N	P	I	Q	C	V	L	V	T	L	A	A	C	F	G	G	L	G	A	S	H	I	N	D	S	G	F	W	I	V	T	K	Y
Secondary structure
SS confidence
Disorder							?																			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.
Sequence		L	G	L	S	V	A	D	G	L	K	T	W	T	V	L	T	T	I	L	G	F	T	G	F	L	I	T	W	C	V	W	A	V	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 2w8a chain C Region: 31 - 228 Aligned: 181 Modelled: 197 Confidence: 16.2% Identity: 10% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 3hd6 chain A Region: 108 - 228 Aligned: 118 Modelled: 121 Confidence: 11.6% Identity: 12% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2b2h chain A Region: 82 - 228 Aligned: 147 Modelled: 147 Confidence: 9.6% Identity: 15% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) Phyre2 PDB 3b9y chain A Region: 108 - 240 Aligned: 124 Modelled: 133 Confidence: 8.9% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 2xut chain C Region: 72 - 250 Aligned: 179 Modelled: 179 Confidence: 8.1% Identity: 8% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 2a65 chain A domain 1 Region: 79 - 302 Aligned: 199 Modelled: 207 Confidence: 7.4% Identity: 14% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 1xme chain A domain 1 Region: 177 - 261 Aligned: 85 Modelled: 85 Confidence: 7.0% Identity: 6% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 3eh4 chain A Region: 177 - 261 Aligned: 85 Modelled: 85 Confidence: 6.3% Identity: 6% PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus Phyre2 PDB 2vof chain A Region: 62 - 99 Aligned: 38 Modelled: 37 Confidence: 6.0% Identity: 11% PDB header:apoptosis Chain: A: PDB Molecule:bcl-2-related protein a1; PDBTitle: structure of mouse a1 bound to the puma bh3-domain Phyre2 PDB 2knc chain A Region: 180 - 222 Aligned: 43 Modelled: 43 Confidence: 5.8% Identity: 7% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2oar chain A Region: 180 - 236 Aligned: 57 Modelled: 57 Confidence: 5.8% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) Phyre2 1 c2w8aC_ 2 c3hd6A_ 3 c2b2hA_ 4 c3b9yA_ 5 c2xutC_ 6 d2a65a1 7 d1xmea1 8 c3eh4A_ 9 c2vofA_ 10 c2kncA_ 11 c2oarA_

Detailed template information

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

1 c2w8aC_ 16.2 10 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 2 c3hd6A_ 11.6 12 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 3 c2b2hA_ 9.6 15 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) 4 c3b9yA_ 8.9 12 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 5 c2xutC_ 8.1 8 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 6 d2a65a1 7.4 14 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 7 d1xmea1 7.0 6 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 8 c3eh4A_ 6.3 6 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus 9 c2vofA_ 6.0 11 PDB header:apoptosis Chain: A: PDB Molecule:bcl-2-related protein a1; PDBTitle: structure of mouse a1 bound to the puma bh3-domain 10 c2kncA_ 5.8 7 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 11 c2oarA_ 5.8 12 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl)

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