Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	G	I	N	L	N	K	K	L	W	R	I	P	Q	Q	G	M	V	R	G	V	C	A	G	I	A	N	Y	F	D	V	P	V	K	L	V	R	I	L	V	V	L	S	I	F	F	G	L	A	L	F	T	L	V	A	Y	I	I	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.
Sequence		S	F	A	L	D	P	M	P	D	N	M	A	F	G	E	Q	L	P	S	S	S	E	L	L	D	E	V	D	R	E	L	A	A	S	E	T	R	L	R	E	M	E	R	Y	V	T	S	D	T	F	T	L	R	S	R	F	R	Q	L
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 1f6g chain A Region: 35 - 103 Aligned: 69 Modelled: 69 Confidence: 51.8% Identity: 13% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 3r1f chain O Region: 22 - 34 Aligned: 13 Modelled: 13 Confidence: 39.1% Identity: 31% PDB header:transcription Chain: O: PDB Molecule:esx-1 secretion-associated regulator espr; PDBTitle: crystal structure of a key regulator of virulence in mycobacterium2 tuberculosis Phyre2 PDB 3okq chain A Region: 75 - 114 Aligned: 40 Modelled: 40 Confidence: 23.3% Identity: 8% PDB header:protein binding Chain: A: PDB Molecule:bud site selection protein 6; PDBTitle: crystal structure of a core domain of yeast actin nucleation cofactor2 bud6 Phyre2 PDB 2o0c chain B Region: 11 - 34 Aligned: 24 Modelled: 24 Confidence: 18.1% Identity: 21% PDB header:signaling protein Chain: B: PDB Molecule:alr2278 protein; PDBTitle: crystal structure of the h-nox domain from nostoc sp. pcc 71202 complexed to no Phyre2 PDB 3pp5 chain A Region: 83 - 107 Aligned: 25 Modelled: 25 Confidence: 14.7% Identity: 12% PDB header:structural protein Chain: A: PDB Molecule:brk1; PDBTitle: high-resolution structure of the trimeric scar/wave complex precursor2 brk1 Phyre2 PDB 1v54 chain J Region: 38 - 67 Aligned: 30 Modelled: 30 Confidence: 13.9% Identity: 13% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIa Family: Mitochondrial cytochrome c oxidase subunit VIIa Phyre2 PDB 1htm chain B Region: 82 - 105 Aligned: 24 Modelled: 24 Confidence: 12.3% Identity: 29% PDB header:viral protein Chain: B: PDB Molecule:hemagglutinin ha2 chain; PDBTitle: structure of influenza haemagglutinin at the ph of membrane2 fusion Phyre2 PDB 3e11 chain A domain 1 Region: 26 - 34 Aligned: 9 Modelled: 9 Confidence: 12.0% Identity: 33% Fold: Zincin-like Superfamily: Metalloproteases ("zincins"), catalytic domain Family: TTHA0227-like Phyre2 PDB 1zgx chain B Region: 101 - 110 Aligned: 10 Modelled: 10 Confidence: 10.8% Identity: 40% PDB header:hydrolase Chain: B: PDB Molecule:guanyl-specific ribonuclease sa; PDBTitle: crystal structure of ribonuclease mutant Phyre2 PDB 1emz chain A Region: 21 - 29 Aligned: 9 Modelled: 9 Confidence: 10.0% Identity: 67% PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein e1; PDBTitle: solution structure of fragment (350-370) of the2 transmembrane domain of hepatitis c envelope glycoprotein3 e1 Phyre2 PDB 3f5d chain A Region: 14 - 25 Aligned: 12 Modelled: 12 Confidence: 9.4% Identity: 8% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ydea; PDBTitle: crystal structure of a protein of unknown function from2 bacillus subtilis Phyre2 PDB 2vvy chain C Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 9.3% Identity: 29% PDB header:viral protein Chain: C: PDB Molecule:protein b15; PDBTitle: structure of vaccinia virus protein b14 Phyre2 PDB 3hd6 chain A Region: 17 - 78 Aligned: 62 Modelled: 62 Confidence: 8.8% Identity: 13% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 1nhl chain A Region: 81 - 107 Aligned: 27 Modelled: 27 Confidence: 8.5% Identity: 26% PDB header:protein transport Chain: A: PDB Molecule:synaptosomal-associated protein 23; PDBTitle: snap-23n structure Phyre2 PDB 1txp chain A Region: 84 - 103 Aligned: 20 Modelled: 20 Confidence: 8.1% Identity: 15% PDB header:signaling protein Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer Phyre2 PDB 1txp chain B Region: 84 - 103 Aligned: 20 Modelled: 20 Confidence: 8.1% Identity: 15% PDB header:signaling protein Chain: B: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer Phyre2 PDB 1txp chain D Region: 84 - 103 Aligned: 20 Modelled: 20 Confidence: 8.1% Identity: 15% PDB header:signaling protein Chain: D: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer Phyre2 PDB 1txp chain C Region: 84 - 103 Aligned: 20 Modelled: 20 Confidence: 8.1% Identity: 15% PDB header:signaling protein Chain: C: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer Phyre2 PDB 3swf chain A Region: 82 - 119 Aligned: 38 Modelled: 38 Confidence: 7.6% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:cgmp-gated cation channel alpha-1; PDBTitle: cnga1 621-690 containing clz domain Phyre2 PDB 2y0n chain D Region: 22 - 31 Aligned: 10 Modelled: 10 Confidence: 7.3% Identity: 30% PDB header:transcription Chain: D: PDB Molecule:male-specific lethal 3 homolog; PDBTitle: crystal structure of the complex between dosage2 compensation factors msl1 and msl3 Phyre2 1 d1f6ga_ 2 c3r1fO_ 3 c3okqA_ 4 c2o0cB_ 5 c3pp5A_ 6 d1v54j_ 7 c1htmB_ 8 d3e11a1 9 c1zgxB_ 10 c1emzA_ 11 c3f5dA_ 12 c2vvyC_ 13 c3hd6A_ 14 c1nhlA_ 15 c1txpA_ 16 c1txpB_ 17 c1txpD_ 18 c1txpC_ 19 c3swfA_ 20 c2y0nD_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34

Detailed template information

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

1 d1f6ga_ 51.8 13 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 2 c3r1fO_ 39.1 31 PDB header:transcription Chain: O: PDB Molecule:esx-1 secretion-associated regulator espr; PDBTitle: crystal structure of a key regulator of virulence in mycobacterium2 tuberculosis 3 c3okqA_ 23.3 8 PDB header:protein binding Chain: A: PDB Molecule:bud site selection protein 6; PDBTitle: crystal structure of a core domain of yeast actin nucleation cofactor2 bud6 4 c2o0cB_ 18.1 21 PDB header:signaling protein Chain: B: PDB Molecule:alr2278 protein; PDBTitle: crystal structure of the h-nox domain from nostoc sp. pcc 71202 complexed to no 5 c3pp5A_ 14.7 12 PDB header:structural protein Chain: A: PDB Molecule:brk1; PDBTitle: high-resolution structure of the trimeric scar/wave complex precursor2 brk1 6 d1v54j_ 13.9 13 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIa Family:Mitochondrial cytochrome c oxidase subunit VIIa 7 c1htmB_ 12.3 29 PDB header:viral protein Chain: B: PDB Molecule:hemagglutinin ha2 chain; PDBTitle: structure of influenza haemagglutinin at the ph of membrane2 fusion 8 d3e11a1 12.0 33 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:TTHA0227-like 9 c1zgxB_ 10.8 40 PDB header:hydrolase Chain: B: PDB Molecule:guanyl-specific ribonuclease sa; PDBTitle: crystal structure of ribonuclease mutant 10 c1emzA_ 10.0 67 PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein e1; PDBTitle: solution structure of fragment (350-370) of the2 transmembrane domain of hepatitis c envelope glycoprotein3 e1 11 c3f5dA_ 9.4 8 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ydea; PDBTitle: crystal structure of a protein of unknown function from2 bacillus subtilis 12 c2vvyC_ 9.3 29 PDB header:viral protein Chain: C: PDB Molecule:protein b15; PDBTitle: structure of vaccinia virus protein b14 13 c3hd6A_ 8.8 13 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 14 c1nhlA_ 8.5 26 PDB header:protein transport Chain: A: PDB Molecule:synaptosomal-associated protein 23; PDBTitle: snap-23n structure 15 c1txpA_ 8.1 15 PDB header:signaling protein Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer 16 c1txpB_ 8.1 15 PDB header:signaling protein Chain: B: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer 17 c1txpD_ 8.1 15 PDB header:signaling protein Chain: D: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer 18 c1txpC_ 8.1 15 PDB header:signaling protein Chain: C: PDB Molecule:heterogeneous nuclear ribonucleoprotein c PDBTitle: heterogeneous nuclear ribonucleoprotein (hnrnp) c2 oligomerization domain tetramer 19 c3swfA_ 7.6 16 PDB header:transport protein Chain: A: PDB Molecule:cgmp-gated cation channel alpha-1; PDBTitle: cnga1 621-690 containing clz domain 20 c2y0nD_ 7.3 30 PDB header:transcription Chain: D: PDB Molecule:male-specific lethal 3 homolog; PDBTitle: crystal structure of the complex between dosage2 compensation factors msl1 and msl3 21 d1ukfa_ not modelled 7.1 27 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Avirulence protein Avrpph3 22 c3rmsA_ not modelled 7.1 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein svir_20580 from2 saccharomonospora viridis 23 c2vvxA_ not modelled 7.1 19 PDB header:viral protein Chain: A: PDB Molecule:protein a52; PDBTitle: structure of vaccinia virus protein a52 24 c3p8cE_ not modelled 7.0 30 PDB header:protein binding Chain: E: PDB Molecule:probable protein brick1; PDBTitle: structure and control of the actin regulatory wave complex 25 d1r69a_ not modelled 6.9 25 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 26 d2fexa1 not modelled 6.7 29 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI 27 d1pv0a_ not modelled 6.7 25 Fold:Long alpha-hairpin Superfamily:Sporulation inhibitor Sda Family:Sporulation inhibitor Sda 28 c1envA_ not modelled 6.5 14 PDB header:viral protein Chain: A: PDB Molecule:hiv-1 envelope protein chimera consisting of a fragment of PDBTitle: atomic structure of the ectodomain from hiv-1 gp41 29 c2k6sB_ not modelled 6.2 30 PDB header:protein transport Chain: B: PDB Molecule:rab11fip2 protein; PDBTitle: structure of rab11-fip2 c-terminal coiled-coil domain 30 c3i5dC_ not modelled 6.2 19 PDB header:transport protein Chain: C: PDB Molecule:p2x purinoceptor; PDBTitle: crystal structure of the atp-gated p2x4 ion channel in the closed, apo2 state at 3.5 angstroms (r3) 31 c2f5jA_ not modelled 6.1 60 PDB header:gene regulation Chain: A: PDB Molecule:mortality factor 4-like protein 1; PDBTitle: crystal structure of mrg domain from human mrg15 32 c3cneD_ not modelled 5.8 36 PDB header:hydrolase Chain: D: PDB Molecule:putative protease i; PDBTitle: crystal structure of the putative protease i from bacteroides2 thetaiotaomicron 33 c3efeC_ not modelled 5.8 18 PDB header:chaperone Chain: C: PDB Molecule:thij/pfpi family protein; PDBTitle: the crystal structure of the thij/pfpi family protein from bacillus2 anthracis 34 d2axte1 not modelled 5.5 19 Fold:Single transmembrane helix Superfamily:Cytochrome b559 subunits Family:Cytochrome b559 subunits

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