Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	A	Y	L	I	R	R	L	L	L	V	I	P	T	L	W	A	I	I	T	I	N	F	F	I	V	Q	I	A	P	G	G	P	V	D	Q	A	I	A	A	I	E	F	G	N	A	G	V	L	P	G	A	G	G	E	G	V	R	A
Secondary structure
SS confidence
Disorder		?																																							?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	H	A	Q	T	G	V	G	N	I	S	D	S	N	Y	R	G	G	R	G	L	D	P	E	V	I	A	E	I	T	H	R	Y	G	F	D	K	P	I	H	E	R	Y	F	K	M	L	W	D	Y	I	R	F	D	F	G	D	S	L	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	S	A	S	V	L	T	L	I	K	D	S	L	P	V	S	I	T	L	G	L	W	S	T	L	I	I	Y	L	V	S	I	P	L	G	I	R	K	A	V	Y	N	G	S	R	F	D	V	W	S	S	A	F	I	I	I	G	Y	A	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	A	F	L	F	A	I	L	L	I	V	F	F	A	G	G	S	Y	F	D	L	F	P	L	R	G	L	V	S	A	N	F	D	S	L	P	W	Y	Q	K	I	T	D	Y	L	W	H	I	T	L	P	V	L	A	T	V	I	G	G	F
Secondary structure
SS confidence
Disorder																													?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	A	L	T	M	L	T	K	N	S	F	L	D	E	V	R	K	Q	Y	V	V	T	A	R	A	K	G	V	S	E	K	N	I	L	W	K	H	V	F	R	N	A	M	L	L	V	I	A	G	F	P	A	T	F	I	S	M	F	F	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	S	L	L	I	E	V	M	F	S	L	N	G	L	G	L	L	G	Y	E	A	T	V	S	R	D	Y	P	V	M	F	G	T	L	Y	I	F	T	L	I	G	L	L	L	N	I	V	S	D	I	S	Y	T	L	V	D	P	R	I	D
Secondary structure
SS confidence
Disorder																																																												?	?
Disorder confidence
		.	.	.	.
Sequence		F	E	G	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: 128 - 349 Aligned: 194 Modelled: 197 Confidence: 99.9% Identity: 19% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C domain 1 Region: 127 - 351 Aligned: 206 Modelled: 208 Confidence: 99.8% Identity: 17% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 127 - 351 Aligned: 206 Modelled: 208 Confidence: 99.8% Identity: 17% 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 3d31 chain C domain 1 Region: 127 - 348 Aligned: 205 Modelled: 207 Confidence: 99.8% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 127 - 348 Aligned: 205 Modelled: 207 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 2r6g chain F domain 2 Region: 117 - 347 Aligned: 222 Modelled: 231 Confidence: 99.7% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 107 - 347 Aligned: 233 Modelled: 241 Confidence: 99.6% Identity: 14% 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 3fh6 chain F Region: 121 - 348 Aligned: 219 Modelled: 228 Confidence: 99.5% Identity: 15% 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 G domain 1 Region: 129 - 348 Aligned: 196 Modelled: 199 Confidence: 99.1% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1wz4 chain A Region: 353 - 360 Aligned: 8 Modelled: 8 Confidence: 21.8% Identity: 50% 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: 250 - 273 Aligned: 22 Modelled: 24 Confidence: 18.4% Identity: 41% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 1cii chain A Region: 112 - 169 Aligned: 55 Modelled: 58 Confidence: 16.1% Identity: 11% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 1y66 chain D Region: 82 - 105 Aligned: 24 Modelled: 24 Confidence: 13.6% Identity: 21% PDB header:de novo protein Chain: D: PDB Molecule:engrailed homeodomain; PDBTitle: dioxane contributes to the altered conformation and2 oligomerization state of a designed engrailed homeodomain3 variant Phyre2 PDB 2ka1 chain A Region: 137 - 161 Aligned: 25 Modelled: 25 Confidence: 11.3% Identity: 32% 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 2ka2 chain B Region: 137 - 161 Aligned: 25 Modelled: 25 Confidence: 11.3% Identity: 32% 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 B Region: 137 - 161 Aligned: 25 Modelled: 25 Confidence: 11.3% Identity: 32% 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: 137 - 161 Aligned: 25 Modelled: 25 Confidence: 11.3% Identity: 32% 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 2hw2 chain A Region: 31 - 93 Aligned: 38 Modelled: 38 Confidence: 9.7% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:rifampin adp-ribosyl transferase; PDBTitle: crystal structure of rifampin adp-ribosyl transferase in2 complex with rifampin Phyre2 PDB 2jwa chain A Region: 135 - 164 Aligned: 30 Modelled: 30 Confidence: 9.1% Identity: 17% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 2j5d chain A Region: 137 - 161 Aligned: 25 Modelled: 25 Confidence: 8.6% Identity: 32% 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 Phyre2 1 d3dhwa1 2 d2onkc1 3 c2onkC_ 4 d3d31c1 5 c3d31D_ 6 d2r6gf2 7 c2r6gF_ 8 c3fh6F_ 9 d2r6gg1 10 c1wz4A_ 11 c2cw1A_ 12 c1ciiA_ 13 c1y66D_ 14 c2ka1A_ 15 c2ka2B_ 16 c2ka1B_ 17 c2ka2A_ 18 c2hw2A_ 19 c2jwaA_ 20 c2j5dA_ 21 22 23 24

Detailed template information

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

1 d3dhwa1 99.9 19 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 d2onkc1 99.8 17 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c2onkC_ 99.8 17 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 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 d2r6gf2 99.7 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 7 c2r6gF_ 99.6 14 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 8 c3fh6F_ 99.5 15 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 9 d2r6gg1 99.1 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c1wz4A_ 21.8 50 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 11 c2cw1A_ 18.4 41 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 12 c1ciiA_ 16.1 11 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 13 c1y66D_ 13.6 21 PDB header:de novo protein Chain: D: PDB Molecule:engrailed homeodomain; PDBTitle: dioxane contributes to the altered conformation and2 oligomerization state of a designed engrailed homeodomain3 variant 14 c2ka1A_ 11.3 32 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 15 c2ka2B_ 11.3 32 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 16 c2ka1B_ 11.3 32 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_ 11.3 32 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 c2hw2A_ 9.7 21 PDB header:transferase Chain: A: PDB Molecule:rifampin adp-ribosyl transferase; PDBTitle: crystal structure of rifampin adp-ribosyl transferase in2 complex with rifampin 19 c2jwaA_ 9.1 17 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 20 c2j5dA_ 8.6 32 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 21 d2d6fc1 not modelled 7.6 23 Fold:GatB/YqeY motif Superfamily:GatB/YqeY motif Family:GatB/GatE C-terminal domain-like 22 d1ntca_ not modelled 7.2 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 23 d1g2ha_ not modelled 6.9 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 24 c2b9sB_ not modelled 6.3 50 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

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