Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	E	I	L	H	E	Y	W	K	P	L	L	W	T	D	G	Y	R	F	T	G	V	A	I	T	L	W	L	L	I	L	S	V	V	I	G	G	V	L	A	L	F	L	A	I	G	R	V	S	S	N	K	Y	I	Q	F	P	I	W
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	F	T	Y	I	F	R	G	T	P	L	Y	V	Q	L	L	V	F	Y	S	G	M	Y	T	L	E	I	V	K	G	T	E	F	L	N	A	F	F	R	S	G	L	N	C	T	V	L	A	L	T	L	N	T	C	A	Y	T	T	E	I
Secondary structure
SS confidence
Disorder																												?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	A	G	A	I	R	S	V	P	H	G	E	I	E	A	A	R	A	Y	G	F	S	T	F	K	M	Y	R	C	I	I	L	P	S	A	L	R	I	A	L	P	A	Y	S	N	E	V	I	L	M	L	H	S	T	A	L	A	F	T	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.
Sequence		T	V	P	D	L	L	K	I	A	R	D	I	N	A	A	T	Y	Q	P	F	T	A	F	G	I	A	A	V	L	Y	L	I	I	S	Y	V	L	I	S	L	F	R	R	A	E	K	R	W	L	Q	H	V	K	P	S	S	T	H
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 3d31 chain D Region: 7 - 222 Aligned: 215 Modelled: 216 Confidence: 100.0% Identity: 13% 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: 7 - 222 Aligned: 215 Modelled: 216 Confidence: 100.0% Identity: 13% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 7 - 224 Aligned: 215 Modelled: 218 Confidence: 100.0% 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 - 224 Aligned: 215 Modelled: 218 Confidence: 100.0% Identity: 13% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F domain 2 Region: 7 - 220 Aligned: 214 Modelled: 214 Confidence: 100.0% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 7 - 220 Aligned: 214 Modelled: 214 Confidence: 100.0% Identity: 15% 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: 7 - 227 Aligned: 221 Modelled: 221 Confidence: 100.0% 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 G domain 1 Region: 7 - 236 Aligned: 224 Modelled: 230 Confidence: 100.0% Identity: 15% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 18 - 222 Aligned: 201 Modelled: 205 Confidence: 99.9% Identity: 19% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1umq chain A Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 30.7% Identity: 13% 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 Phyre2 PDB 1umq chain A Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 30.7% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1ntc chain A Region: 119 - 150 Aligned: 32 Modelled: 32 Confidence: 29.1% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1fip chain A Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 26.8% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1eto chain B Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 25.9% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 3e7l chain D Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 21.9% Identity: 19% PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain Phyre2 PDB 2jwa chain A Region: 24 - 57 Aligned: 34 Modelled: 34 Confidence: 20.6% Identity: 12% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 1etx chain A Region: 120 - 150 Aligned: 31 Modelled: 31 Confidence: 20.2% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1g2h chain A Region: 120 - 150 Aligned: 30 Modelled: 31 Confidence: 12.1% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2cw1 chain A Region: 129 - 143 Aligned: 15 Modelled: 15 Confidence: 10.7% Identity: 40% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 2i88 chain A Region: 6 - 47 Aligned: 39 Modelled: 42 Confidence: 6.6% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:colicin-e1; PDBTitle: crystal structure of the channel-forming domain of colicin2 e1 Phyre2 1 c3d31D_ 2 d3d31c1 3 c2onkC_ 4 d2onkc1 5 d2r6gf2 6 c2r6gF_ 7 c3fh6F_ 8 d2r6gg1 9 d3dhwa1 10 c1umqA_ 11 d1umqa_ 12 d1ntca_ 13 d1fipa_ 14 d1etob_ 15 c3e7lD_ 16 c2jwaA_ 17 d1etxa_ 18 d1g2ha_ 19 c2cw1A_ 20 c2i88A_

Detailed template information

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

1 c3d31D_ 100.0 13 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 2 d3d31c1 100.0 13 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c2onkC_ 100.0 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 4 d2onkc1 100.0 13 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 d2r6gf2 100.0 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 6 c2r6gF_ 100.0 15 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 7 c3fh6F_ 100.0 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 d2r6gg1 100.0 15 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 d3dhwa1 99.9 19 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c1umqA_ 30.7 13 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 11 d1umqa_ 30.7 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 12 d1ntca_ 29.1 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 13 d1fipa_ 26.8 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 14 d1etob_ 25.9 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 15 c3e7lD_ 21.9 19 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 16 c2jwaA_ 20.6 12 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 17 d1etxa_ 20.2 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 d1g2ha_ 12.1 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 19 c2cw1A_ 10.7 40 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 20 c2i88A_ 6.6 18 PDB header:membrane protein Chain: A: PDB Molecule:colicin-e1; PDBTitle: crystal structure of the channel-forming domain of colicin2 e1

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