Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	R	Y	V	L	R	R	F	L	L	L	I	P	M	V	L	A	A	S	V	I	I	F	L	M	L	R	L	G	T	G	D	P	A	L	D	Y	L	R	L	S	N	L	P	P	T	P	E	M	L	A	S	T	R	T	M	L	G	L
Secondary structure
SS confidence
Disorder		?																																							?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	Q	P	L	Y	V	Q	Y	G	T	W	L	W	K	A	L	H	L	D	F	G	I	S	F	A	S	Q	R	P	V	L	D	D	M	L	N	F	L	P	A	T	L	E	L	A	G	A	A	L	V	L	I	L	L	T	S	V	P	L	G
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	W	A	A	R	H	R	D	R	L	P	D	F	A	V	R	F	I	A	F	L	G	V	S	M	P	N	F	W	L	A	F	L	L	V	M	A	F	S	V	Y	L	Q	W	L	P	A	M	G	Y	G	G	W	Q	H	I	I	L	P	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	S	I	A	F	M	S	L	A	I	N	A	R	L	L	R	A	S	M	L	D	V	A	G	Q	R	H	V	T	W	A	R	L	R	G	L	N	D	K	Q	T	E	R	R	H	I	L	R	N	A	S	L	P	M	I	T	A	V	G	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		H	I	G	E	L	I	G	G	T	M	I	I	E	N	I	F	A	W	P	G	V	G	R	Y	A	V	S	A	I	F	N	R	D	Y	P	V	I	Q	C	F	T	L	M	M	V	V	V	F	V	V	C	N	L	I	V	D	L	L	N	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.
Sequence		A	L	D	P	R	I	R	R	H	E	G	A	H	A
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 3dhw chain A domain 1 Region: 93 - 296 Aligned: 194 Modelled: 204 Confidence: 99.9% Identity: 15% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 64 - 298 Aligned: 233 Modelled: 235 Confidence: 99.8% Identity: 12% PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda Phyre2 PDB 2onk chain C domain 1 Region: 64 - 298 Aligned: 233 Modelled: 235 Confidence: 99.8% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain C domain 1 Region: 92 - 295 Aligned: 202 Modelled: 204 Confidence: 99.8% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 92 - 295 Aligned: 202 Modelled: 204 Confidence: 99.8% Identity: 16% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3fh6 chain F Region: 1 - 312 Aligned: 284 Modelled: 311 Confidence: 99.7% Identity: 12% PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli Phyre2 PDB 2r6g chain F domain 2 Region: 78 - 294 Aligned: 215 Modelled: 217 Confidence: 99.7% Identity: 10% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 72 - 294 Aligned: 221 Modelled: 223 Confidence: 99.7% Identity: 9% PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter Phyre2 PDB 2r6g chain G domain 1 Region: 6 - 314 Aligned: 270 Modelled: 284 Confidence: 99.4% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1cii chain A Region: 77 - 134 Aligned: 55 Modelled: 58 Confidence: 17.1% Identity: 7% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 1wz4 chain A Region: 299 - 307 Aligned: 9 Modelled: 9 Confidence: 13.8% Identity: 67% PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope Phyre2 PDB 2cw1 chain A Region: 198 - 217 Aligned: 18 Modelled: 20 Confidence: 10.3% Identity: 28% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 2jwa chain A Region: 100 - 129 Aligned: 30 Modelled: 30 Confidence: 6.8% Identity: 20% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 1tdp chain A Region: 208 - 238 Aligned: 31 Modelled: 31 Confidence: 6.5% Identity: 19% Fold: Bromodomain-like Superfamily: Bacteriocin immunity protein-like Family: Carnobacteriocin B2 immunity protein Phyre2 PDB 3ci0 chain K domain 2 Region: 294 - 313 Aligned: 20 Modelled: 20 Confidence: 5.5% Identity: 20% Fold: SAM domain-like Superfamily: GspK insert domain-like Family: GspK insert domain-like Phyre2 PDB 2b9s chain B Region: 294 - 306 Aligned: 13 Modelled: 13 Confidence: 5.3% Identity: 31% PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex Phyre2 PDB 2nww chain A domain 1 Region: 3 - 236 Aligned: 189 Modelled: 202 Confidence: 5.3% Identity: 11% Fold: Proton glutamate symport protein Superfamily: Proton glutamate symport protein Family: Proton glutamate symport protein Phyre2 1 d3dhwa1 2 c2onkC_ 3 d2onkc1 4 d3d31c1 5 c3d31D_ 6 c3fh6F_ 7 d2r6gf2 8 c2r6gF_ 9 d2r6gg1 10 c1ciiA_ 11 c1wz4A_ 12 c2cw1A_ 13 c2jwaA_ 14 d1tdpa_ 15 d3ci0k2 16 c2b9sB_ 17 d2nwwa1

Detailed template information

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

1 d3dhwa1 99.9 15 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 c2onkC_ 99.8 12 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 3 d2onkc1 99.8 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 4 d3d31c1 99.8 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c3d31D_ 99.8 16 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 6 c3fh6F_ 99.7 12 PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli 7 d2r6gf2 99.7 10 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 8 c2r6gF_ 99.7 9 PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter 9 d2r6gg1 99.4 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c1ciiA_ 17.1 7 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 11 c1wz4A_ 13.8 67 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 12 c2cw1A_ 10.3 28 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 13 c2jwaA_ 6.8 20 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 14 d1tdpa_ 6.5 19 Fold:Bromodomain-like Superfamily:Bacteriocin immunity protein-like Family:Carnobacteriocin B2 immunity protein 15 d3ci0k2 5.5 20 Fold:SAM domain-like Superfamily:GspK insert domain-like Family:GspK insert domain-like 16 c2b9sB_ 5.3 31 PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex 17 d2nwwa1 5.3 11 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein

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