Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	F	W	S	I	L	R	Q	R	C	W	G	L	V	L	V	V	A	G	V	C	V	I	T	F	I	I	S	H	L	I	P	G	D	P	A	R	L	L	A	G	D	R	A	S	D	A	I	V	E	N	I	R	Q	Q	L	G	L	D
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	P	L	Y	V	Q	F	Y	R	Y	V	S	D	L	F	H	G	D	L	G	T	S	I	R	T	G	R	P	V	L	E	E	L	R	I	F	F	P	A	T	L	E	L	A	F	G	A	L	L	L	A	L	L	I	G	I	P	L	G	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	S	A	V	W	R	N	R	W	L	D	H	L	V	R	I	M	A	I	T	G	I	S	T	P	A	F	W	L	G	L	G	V	I	V	L	F	Y	G	H	L	Q	I	L	P	G	G	G	R	L	D	D	W	L	D	P	P	T	H	V
Secondary structure
SS confidence
Disorder																																																			?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	G	F	Y	L	L	D	A	L	L	E	G	N	G	E	V	F	F	N	A	L	Q	H	L	I	L	P	A	L	T	L	A	F	V	H	L	G	I	V	A	R	Q	I	R	S	A	M	L	E	Q	L	S	E	D	Y	I	R	T	A	R
Secondary structure
SS confidence
Disorder		?	?	?			?		?	?	?	?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	S	G	L	P	G	W	Y	I	V	L	C	Y	A	L	P	N	A	L	I	P	S	I	T	V	L	G	L	A	L	G	D	L	L	Y	G	A	V	L	T	E	T	V	F	A	W	P	G	M	G	A	W	V	V	T	S	I	Q	A	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340
Sequence		D	F	P	A	V	M	G	F	A	V	V	V	S	F	A	Y	V	L	V	N	L	V	V	D	L	L	Y	L	W	I	D	P	R	I	G	R	G	G	G	E
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: 92 - 324 Aligned: 194 Modelled: 196 Confidence: 99.9% Identity: 22% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 91 - 326 Aligned: 205 Modelled: 207 Confidence: 99.8% Identity: 14% 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: 91 - 326 Aligned: 205 Modelled: 207 Confidence: 99.8% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain C domain 1 Region: 91 - 323 Aligned: 204 Modelled: 206 Confidence: 99.8% Identity: 18% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 91 - 323 Aligned: 204 Modelled: 206 Confidence: 99.8% Identity: 18% 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: 81 - 322 Aligned: 222 Modelled: 224 Confidence: 99.7% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3fh6 chain F Region: 3 - 340 Aligned: 295 Modelled: 310 Confidence: 99.7% Identity: 14% 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 Region: 72 - 322 Aligned: 231 Modelled: 233 Confidence: 99.6% Identity: 13% 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: 93 - 338 Aligned: 208 Modelled: 213 Confidence: 99.3% Identity: 13% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2cw1 chain A Region: 226 - 249 Aligned: 22 Modelled: 24 Confidence: 27.6% Identity: 36% 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: 76 - 133 Aligned: 55 Modelled: 58 Confidence: 24.0% Identity: 11% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 2ka2 chain A Region: 101 - 125 Aligned: 25 Modelled: 25 Confidence: 19.1% Identity: 36% 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 2ka1 chain B Region: 101 - 125 Aligned: 25 Modelled: 25 Confidence: 19.1% Identity: 36% 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 2ka1 chain A Region: 101 - 125 Aligned: 25 Modelled: 25 Confidence: 19.1% Identity: 36% 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: 101 - 125 Aligned: 25 Modelled: 25 Confidence: 19.1% Identity: 36% 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 1a9x chain A domain 1 Region: 213 - 249 Aligned: 37 Modelled: 37 Confidence: 14.6% Identity: 14% Fold: Carbamoyl phosphate synthetase, large subunit connection domain Superfamily: Carbamoyl phosphate synthetase, large subunit connection domain Family: Carbamoyl phosphate synthetase, large subunit connection domain Phyre2 PDB 1wz4 chain A Region: 327 - 335 Aligned: 9 Modelled: 9 Confidence: 14.3% Identity: 33% PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope Phyre2 PDB 2j5d chain A Region: 101 - 125 Aligned: 25 Modelled: 25 Confidence: 13.1% Identity: 36% 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 PDB 1y66 chain D Region: 46 - 69 Aligned: 24 Modelled: 24 Confidence: 10.8% Identity: 33% 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 2b9s chain B Region: 327 - 334 Aligned: 8 Modelled: 8 Confidence: 9.2% Identity: 63% 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 1 d3dhwa1 2 c2onkC_ 3 d2onkc1 4 d3d31c1 5 c3d31D_ 6 d2r6gf2 7 c3fh6F_ 8 c2r6gF_ 9 d2r6gg1 10 c2cw1A_ 11 c1ciiA_ 12 c2ka2A_ 13 c2ka1B_ 14 c2ka1A_ 15 c2ka2B_ 16 d1a9xa1 17 c1wz4A_ 18 c2j5dA_ 19 c1y66D_ 20 c2b9sB_ 21 22 23 24 25 26 27 28

Detailed template information

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

1 d3dhwa1 99.9 22 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 c2onkC_ 99.8 14 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 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 4 d3d31c1 99.8 18 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c3d31D_ 99.8 18 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 c3fh6F_ 99.7 14 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 8 c2r6gF_ 99.6 13 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 99.3 13 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c2cw1A_ 27.6 36 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 11 c1ciiA_ 24.0 11 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 12 c2ka2A_ 19.1 36 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 13 c2ka1B_ 19.1 36 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 14 c2ka1A_ 19.1 36 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_ 19.1 36 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 d1a9xa1 14.6 14 Fold:Carbamoyl phosphate synthetase, large subunit connection domain Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain Family:Carbamoyl phosphate synthetase, large subunit connection domain 17 c1wz4A_ 14.3 33 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 18 c2j5dA_ 13.1 36 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 19 c1y66D_ 10.8 33 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 20 c2b9sB_ 9.2 63 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 21 c2l6pA_ not modelled 8.4 15 PDB header:structure genomics, unknown function Chain: A: PDB Molecule:phac1, phac2 and phad genes; PDBTitle: nmr solution structure of the protein np_253742.1 22 d1g2ha_ not modelled 7.1 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 23 d1umqa_ not modelled 6.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 24 c1umqA_ not modelled 6.8 15 PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity 25 c2l6nA_ not modelled 6.7 15 PDB header:structure genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yp_001092504.1; PDBTitle: nmr solution structure of the protein yp_001092504.1 26 d1etob_ not modelled 6.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 27 d1fipa_ not modelled 5.7 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 28 d1tc3c_ not modelled 5.6 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain

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