Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	I	F	T	L	R	R	I	L	L	L	I	V	T	L	F	L	L	T	F	V	G	F	S	L	S	Y	F	T	P	H	A	P	L	Q	G	A	S	L	W	N	A	W	V	F	W	F	N	G	L	I	H	W	D	F	G	V	S	S
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	N	G	Q	P	I	A	E	Q	L	K	E	V	F	P	A	T	M	E	L	C	I	L	A	F	G	F	A	L	I	V	G	I	P	V	G	M	I	A	G	I	T	R	H	K	W	Q	D	N	L	I	N	A	I	A	L	L	G	F	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	P	V	F	W	L	A	L	L	L	T	L	F	C	S	L	T	L	G	W	L	P	V	S	G	R	F	D	L	L	Y	E	V	K	P	I	T	G	F	A	L	I	D	A	W	L	S	D	S	P	W	R	D	E	M	I	M	S	A	I
Secondary structure
SS confidence
Disorder																												?	?	?	?	?	?	?		?	?	?	?				?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	H	M	I	L	P	V	I	T	L	S	V	A	P	T	T	E	V	I	R	L	M	R	I	S	T	I	E	V	Y	D	Q	N	Y	V	K	A	A	A	T	R	G	L	S	R	F	T	I	L	R	R	H	V	L	H	N	A	L	P	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	I	P	R	L	G	L	Q	F	S	T	M	L	T	L	A	M	I	T	E	M	V	F	S	W	P	G	L	G	R	W	L	I	N	A	I	R	Q	Q	D	Y	A	A	I	S	A	G	V	M	V	C	G	S	L	V	I	I	V	N	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.
Sequence		I	S	D	I	L	G	A	M	A	N	P	L	K	H	K	E	W	Y	A	L	R
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: 69 - 303 Aligned: 194 Modelled: 196 Confidence: 99.9% Identity: 20% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 7 - 305 Aligned: 248 Modelled: 250 Confidence: 99.8% Identity: 13% 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: 7 - 305 Aligned: 248 Modelled: 250 Confidence: 99.8% Identity: 13% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 13 - 301 Aligned: 244 Modelled: 246 Confidence: 99.8% Identity: 11% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3d31 chain C domain 1 Region: 13 - 301 Aligned: 244 Modelled: 246 Confidence: 99.8% Identity: 11% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3fh6 chain F Region: 1 - 317 Aligned: 293 Modelled: 297 Confidence: 99.7% Identity: 10% 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: 58 - 301 Aligned: 222 Modelled: 224 Confidence: 99.7% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 62 - 301 Aligned: 218 Modelled: 220 Confidence: 99.6% Identity: 12% 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: 2 - 303 Aligned: 259 Modelled: 267 Confidence: 99.4% Identity: 11% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1wz4 chain A Region: 306 - 314 Aligned: 9 Modelled: 9 Confidence: 22.7% Identity: 22% PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope Phyre2 PDB 1cii chain A Region: 50 - 110 Aligned: 58 Modelled: 61 Confidence: 12.9% Identity: 5% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 1ntc chain A Region: 200 - 231 Aligned: 32 Modelled: 32 Confidence: 12.1% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1eto chain B Region: 200 - 231 Aligned: 32 Modelled: 32 Confidence: 7.7% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2ka2 chain B Region: 78 - 102 Aligned: 25 Modelled: 25 Confidence: 7.6% Identity: 12% PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints Phyre2 PDB 2ka1 chain A Region: 78 - 102 Aligned: 25 Modelled: 25 Confidence: 7.6% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles Phyre2 PDB 2ka1 chain B Region: 78 - 102 Aligned: 25 Modelled: 25 Confidence: 7.6% Identity: 12% PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles Phyre2 PDB 2ka2 chain A Region: 78 - 102 Aligned: 25 Modelled: 25 Confidence: 7.6% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints Phyre2 PDB 2auw chain A domain 1 Region: 216 - 248 Aligned: 33 Modelled: 33 Confidence: 6.9% Identity: 27% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: NE0471 C-terminal domain-like Phyre2 PDB 2cw1 chain A Region: 209 - 239 Aligned: 29 Modelled: 31 Confidence: 6.8% Identity: 45% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 2jrx chain A domain 1 Region: 294 - 317 Aligned: 24 Modelled: 24 Confidence: 6.7% Identity: 13% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 1 d3dhwa1 2 c2onkC_ 3 d2onkc1 4 c3d31D_ 5 d3d31c1 6 c3fh6F_ 7 d2r6gf2 8 c2r6gF_ 9 d2r6gg1 10 c1wz4A_ 11 c1ciiA_ 12 d1ntca_ 13 d1etob_ 14 c2ka2B_ 15 c2ka1A_ 16 c2ka1B_ 17 c2ka2A_ 18 d2auwa1 19 c2cw1A_ 20 d2jrxa1 21 22 23 24 25

Detailed template information

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

1 d3dhwa1 99.9 20 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 c2onkC_ 99.8 13 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 13 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 4 c3d31D_ 99.8 11 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 5 d3d31c1 99.8 11 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 6 c3fh6F_ 99.7 10 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 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 8 c2r6gF_ 99.6 12 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 11 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c1wz4A_ 22.7 22 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 11 c1ciiA_ 12.9 5 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 12 d1ntca_ 12.1 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 13 d1etob_ 7.7 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 14 c2ka2B_ 7.6 12 PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints 15 c2ka1A_ 7.6 12 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles 16 c2ka1B_ 7.6 12 PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles 17 c2ka2A_ 7.6 12 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints 18 d2auwa1 6.9 27 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 19 c2cw1A_ 6.8 45 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 20 d2jrxa1 6.7 13 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 21 d2jpqa1 not modelled 6.7 21 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 22 c3n9iA_ not modelled 6.5 14 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of tryptophanyl-trna synthetase from yersinia pestis2 co92 23 c2j5dA_ not modelled 6.3 12 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: nmr structure of bnip3 transmembrane domain in lipid2 bicelles 24 c1xl6B_ not modelled 5.8 17 PDB header:metal transport Chain: B: PDB Molecule:inward rectifier potassium channel; PDBTitle: intermediate gating structure 2 of the inwardly rectifying k+ channel2 kirbac3.1 25 d2qtia1 not modelled 5.2 13 Fold:YejL-like Superfamily:YejL-like Family:YejL-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