Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	L	V	I	K	A	A	L	G	A	L	V	V	L	L	I	G	V	L	A	K	T	K	N	Y	Y	I	A	G	L	I	P	L	F	P	T	F	A	L	I	A	H	Y	I	V	A	S	E	R	G	I	E	A	L	R	A	T	I	I
Secondary structure
SS confidence
Disorder		?																							?																							?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.
Sequence		F	S	M	W	S	I	I	P	Y	F	V	Y	L	V	S	L	W	Y	F	T	G	M	M	R	L	P	A	A	F	V	G	S	V	A	C	W	G	I	S	A	W	V	L	I	I	C	W	I	K	L	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 3ha4 chain C Region: 19 - 66 Aligned: 48 Modelled: 48 Confidence: 23.2% Identity: 27% PDB header:unknown function Chain: C: PDB Molecule:mix1; PDBTitle: crystal structure of the type one membrane protein mix1 from2 leishmania Phyre2 PDB 2ki9 chain A Region: 35 - 43 Aligned: 9 Modelled: 9 Confidence: 22.4% Identity: 67% PDB header:membrane protein Chain: A: PDB Molecule:cannabinoid receptor 2; PDBTitle: human cannabinoid receptor-2 helix 6 Phyre2 PDB 3kf8 chain C Region: 22 - 38 Aligned: 17 Modelled: 17 Confidence: 14.4% Identity: 41% PDB header:structural protein Chain: C: PDB Molecule:protein stn1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex Phyre2 PDB 1lva chain A domain 4 Region: 40 - 73 Aligned: 34 Modelled: 34 Confidence: 8.9% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal fragment of elongation factor SelB Phyre2 PDB 3hm5 chain A Region: 47 - 57 Aligned: 11 Modelled: 11 Confidence: 8.8% Identity: 27% PDB header:transcription Chain: A: PDB Molecule:dna methyltransferase 1-associated protein 1; PDBTitle: sant domain of human dna methyltransferase 1 associated2 protein 1 Phyre2 PDB 1w7p chain D domain 2 Region: 51 - 59 Aligned: 9 Modelled: 9 Confidence: 8.0% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Vacuolar sorting protein domain Phyre2 PDB 1pd0 chain A domain 1 Region: 31 - 68 Aligned: 37 Modelled: 38 Confidence: 7.5% Identity: 22% Fold: ERP29 C domain-like Superfamily: Helical domain of Sec23/24 Family: Helical domain of Sec23/24 Phyre2 PDB 1nlx chain A Region: 35 - 54 Aligned: 18 Modelled: 20 Confidence: 6.3% Identity: 33% Fold: Four-helical up-and-down bundle Superfamily: Group V grass pollen allergen Family: Group V grass pollen allergen Phyre2 PDB 1jdh chain B Region: 46 - 56 Aligned: 11 Modelled: 11 Confidence: 6.1% Identity: 18% PDB header:transcription Chain: B: PDB Molecule:htcf-4; PDBTitle: crystal structure of beta-catenin and htcf-4 Phyre2 PDB 1ckx chain A Region: 52 - 63 Aligned: 12 Modelled: 12 Confidence: 5.8% Identity: 25% PDB header:metal transport Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation Phyre2 1 c3ha4C_ 2 c2ki9A_ 3 c3kf8C_ 4 d1lvaa4 5 c3hm5A_ 6 d1w7pd2 7 d1pd0a1 8 d1nlxa_ 9 c1jdhB_ 10 c1ckxA_

Detailed template information

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

1 c3ha4C_ 23.2 27 PDB header:unknown function Chain: C: PDB Molecule:mix1; PDBTitle: crystal structure of the type one membrane protein mix1 from2 leishmania 2 c2ki9A_ 22.4 67 PDB header:membrane protein Chain: A: PDB Molecule:cannabinoid receptor 2; PDBTitle: human cannabinoid receptor-2 helix 6 3 c3kf8C_ 14.4 41 PDB header:structural protein Chain: C: PDB Molecule:protein stn1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex 4 d1lvaa4 8.9 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal fragment of elongation factor SelB 5 c3hm5A_ 8.8 27 PDB header:transcription Chain: A: PDB Molecule:dna methyltransferase 1-associated protein 1; PDBTitle: sant domain of human dna methyltransferase 1 associated2 protein 1 6 d1w7pd2 8.0 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 7 d1pd0a1 7.5 22 Fold:ERP29 C domain-like Superfamily:Helical domain of Sec23/24 Family:Helical domain of Sec23/24 8 d1nlxa_ 6.3 33 Fold:Four-helical up-and-down bundle Superfamily:Group V grass pollen allergen Family:Group V grass pollen allergen 9 c1jdhB_ 6.1 18 PDB header:transcription Chain: B: PDB Molecule:htcf-4; PDBTitle: crystal structure of beta-catenin and htcf-4 10 c1ckxA_ 5.8 25 PDB header:metal transport Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation

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