Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	A	D	K	S	L	S	P	F	E	I	R	V	Y	R	H	Y	R	I	V	H	G	T	R	V	A	L	A	F	L	L	T	F	L	I	I	R	L	F	T	I	P	E	S	T	W	P	L	V	T	M	V	V	I	M	G	P	I	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	W	G	N	V	V	P	R	A	F	E	R	I	G	G	T	V	L	G	S	I	L	G	L	I	A	L	Q	L	E	L	I	S	L	P	L	M	L	V	W	C	A	A	A	M	F	L	C	G	W	L	A	L	G	K	K	P	Y	Q	G
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	L	I	G	V	T	L	A	I	V	V	G	S	P	T	G	E	I	D	T	A	L	W	R	S	G	D	V	I	L	G	S	L	L	A	M	L	F	T	G	I	W	P	Q	R	A	F	I	H	W	R	I	Q	L	A	K	S	L	T	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	N	R	V	Y	Q	S	A	F	S	P	N	L	L	E	R	P	R	L	E	S	H	L	Q	K	L	L	T	D	A	V	K	M	R	G	L	I	A	P	A	S	K	E	T	R	I	P	K	S	I	Y	E	G	I	Q	T	I	N	R	N
Secondary structure
SS confidence
Disorder												?	?	?	?	?	?	?	?																						?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	V	C	M	L	E	L	Q	I	N	A	Y	W	A	T	R	P	S	H	F	V	L	L	N	A	Q	K	L	R	D	T	Q	H	M	M	Q	Q	I	L	L	S	L	V	H	A	L	Y	E	G	N	P	Q	P	V	F	A	N	T	E	K
Secondary structure
SS confidence
Disorder														?	?	?	?	?	?	?	?	?	?																													?	?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.
Sequence		L	N	D	A	V	E	E	L	R	Q	L	L	N	N	H	H	D	L	K	V	V	E	T	P	I	Y	G	Y	V	W	L	N	M	E	T	A	H	Q	L	E	L	L	S	N	L	I	C	R	A	L	R	K
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 1rwt chain A Region: 6 - 43 Aligned: 37 Modelled: 38 Confidence: 19.6% Identity: 22% Fold: Chlorophyll a-b binding protein Superfamily: Chlorophyll a-b binding protein Family: Chlorophyll a-b binding protein Phyre2 PDB 1oy8 chain A Region: 73 - 163 Aligned: 91 Modelled: 91 Confidence: 16.2% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:acriflavine resistance protein b; PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump Phyre2 PDB 3cx5 chain H domain 1 Region: 6 - 39 Aligned: 33 Modelled: 34 Confidence: 13.1% Identity: 12% Fold: Single transmembrane helix Superfamily: Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 2b0h chain A domain 1 Region: 163 - 289 Aligned: 126 Modelled: 127 Confidence: 12.7% Identity: 13% Fold: Four-helical up-and-down bundle Superfamily: alpha-catenin/vinculin-like Family: VBS domain Phyre2 PDB 3cwb chain T Region: 6 - 39 Aligned: 33 Modelled: 34 Confidence: 9.2% Identity: 42% PDB header:oxidoreductase Chain: T: PDB Molecule:mitochondrial ubiquinol-cytochrome c reductase ubiquinone- PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d Phyre2 PDB 3k07 chain A Region: 18 - 163 Aligned: 141 Modelled: 146 Confidence: 9.0% Identity: 8% PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa Phyre2 PDB 2r6g chain F domain 1 Region: 70 - 142 Aligned: 73 Modelled: 73 Confidence: 8.6% Identity: 8% Fold: MalF N-terminal region-like Superfamily: MalF N-terminal region-like Family: MalF N-terminal region-like Phyre2 PDB 1fx8 chain A Region: 66 - 169 Aligned: 103 Modelled: 104 Confidence: 8.2% Identity: 15% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 1lda chain A Region: 66 - 169 Aligned: 103 Modelled: 104 Confidence: 8.2% Identity: 15% PDB header:transport protein Chain: A: PDB Molecule:glycerol uptake facilitator protein; PDBTitle: crystal structure of the e. coli glycerol facilitator (glpf) without2 substrate glycerol Phyre2 PDB 2yzw chain A Region: 66 - 88 Aligned: 23 Modelled: 23 Confidence: 8.0% Identity: 22% PDB header:hydrolase Chain: A: PDB Molecule:adp-ribosylglycohydrolase; PDBTitle: adp-ribosylglycohydrolase-related protein complex Phyre2 PDB 1iwg chain A domain 8 Region: 73 - 164 Aligned: 92 Modelled: 92 Confidence: 7.9% Identity: 17% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2kvp chain A Region: 163 - 289 Aligned: 126 Modelled: 127 Confidence: 7.7% Identity: 13% PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the talin vbs3 domain, 1815-1973 Phyre2 PDB 2xq2 chain A Region: 59 - 169 Aligned: 111 Modelled: 111 Confidence: 7.5% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 2wse chain 4 Region: 6 - 46 Aligned: 40 Modelled: 41 Confidence: 7.1% Identity: 23% PDB header:photosynthesis Chain: 4: PDB Molecule:chlorophyll a-b binding protein p4, PDBTitle: improved model of plant photosystem i Phyre2 PDB 2woc chain A Region: 71 - 88 Aligned: 18 Modelled: 18 Confidence: 6.8% Identity: 28% PDB header:hydrolase Chain: A: PDB Molecule:adp-ribosyl-[dinitrogen reductase] glycohydrolase; PDBTitle: crystal structure of the dinitrogenase reductase-activating2 glycohydrolase (drag) from rhodospirillum rubrum Phyre2 PDB 3hfw chain A Region: 71 - 88 Aligned: 18 Modelled: 18 Confidence: 6.8% Identity: 17% PDB header:hydrolase Chain: A: PDB Molecule:protein adp-ribosylarginine hydrolase; PDBTitle: crystal structure of human adp-ribosylhydrolase 1 (harh1) Phyre2 PDB 3g9d chain B Region: 71 - 88 Aligned: 18 Modelled: 18 Confidence: 6.7% Identity: 28% PDB header:hydrolase Chain: B: PDB Molecule:dinitrogenase reductase activacting PDBTitle: crystal structure glycohydrolase Phyre2 PDB 2ht2 chain B Region: 73 - 176 Aligned: 92 Modelled: 104 Confidence: 6.7% Identity: 21% PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex Phyre2 PDB 1j4n chain A Region: 66 - 167 Aligned: 101 Modelled: 102 Confidence: 6.7% Identity: 9% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 3oq3 chain A Region: 232 - 352 Aligned: 114 Modelled: 121 Confidence: 6.2% Identity: 15% PDB header:cytokine/viral protein Chain: A: PDB Molecule:interferon alpha-5; PDBTitle: structural basis of type-i interferon sequestration by a poxvirus2 decoy receptor Phyre2 1 d1rwta_ 2 c1oy8A_ 3 d3cx5h1 4 d2b0ha1 5 c3cwbT_ 6 c3k07A_ 7 d2r6gf1 8 d1fx8a_ 9 c1ldaA_ 10 c2yzwA_ 11 d1iwga8 12 c2kvpA_ 13 c2xq2A_ 14 c2wse4_ 15 c2wocA_ 16 c3hfwA_ 17 c3g9dB_ 18 c2ht2B_ 19 d1j4na_ 20 c3oq3A_ 21 22 23 24 25 26

Detailed template information

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

1 d1rwta_ 19.6 22 Fold:Chlorophyll a-b binding protein Superfamily:Chlorophyll a-b binding protein Family:Chlorophyll a-b binding protein 2 c1oy8A_ 16.2 18 PDB header:membrane protein Chain: A: PDB Molecule:acriflavine resistance protein b; PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump 3 d3cx5h1 13.1 12 Fold:Single transmembrane helix Superfamily:Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 4 d2b0ha1 12.7 13 Fold:Four-helical up-and-down bundle Superfamily:alpha-catenin/vinculin-like Family:VBS domain 5 c3cwbT_ 9.2 42 PDB header:oxidoreductase Chain: T: PDB Molecule:mitochondrial ubiquinol-cytochrome c reductase ubiquinone- PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 6 c3k07A_ 9.0 8 PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa 7 d2r6gf1 8.6 8 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 8 d1fx8a_ 8.2 15 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 9 c1ldaA_ 8.2 15 PDB header:transport protein Chain: A: PDB Molecule:glycerol uptake facilitator protein; PDBTitle: crystal structure of the e. coli glycerol facilitator (glpf) without2 substrate glycerol 10 c2yzwA_ 8.0 22 PDB header:hydrolase Chain: A: PDB Molecule:adp-ribosylglycohydrolase; PDBTitle: adp-ribosylglycohydrolase-related protein complex 11 d1iwga8 7.9 17 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 12 c2kvpA_ 7.7 13 PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the talin vbs3 domain, 1815-1973 13 c2xq2A_ 7.5 13 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 14 c2wse4_ 7.1 23 PDB header:photosynthesis Chain: 4: PDB Molecule:chlorophyll a-b binding protein p4, PDBTitle: improved model of plant photosystem i 15 c2wocA_ 6.8 28 PDB header:hydrolase Chain: A: PDB Molecule:adp-ribosyl-[dinitrogen reductase] glycohydrolase; PDBTitle: crystal structure of the dinitrogenase reductase-activating2 glycohydrolase (drag) from rhodospirillum rubrum 16 c3hfwA_ 6.8 17 PDB header:hydrolase Chain: A: PDB Molecule:protein adp-ribosylarginine hydrolase; PDBTitle: crystal structure of human adp-ribosylhydrolase 1 (harh1) 17 c3g9dB_ 6.7 28 PDB header:hydrolase Chain: B: PDB Molecule:dinitrogenase reductase activacting PDBTitle: crystal structure glycohydrolase 18 c2ht2B_ 6.7 21 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 19 d1j4na_ 6.7 9 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 20 c3oq3A_ 6.2 15 PDB header:cytokine/viral protein Chain: A: PDB Molecule:interferon alpha-5; PDBTitle: structural basis of type-i interferon sequestration by a poxvirus2 decoy receptor 21 d1otsa_ not modelled 6.1 16 Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel 22 d2nwwa1 not modelled 5.6 13 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein 23 c3kyiA_ not modelled 5.5 14 PDB header:transferase Chain: A: PDB Molecule:putative histidine protein kinase; PDBTitle: crystal structure of the phosphorylated p1 domain of chea3 in complex2 with chey6 from r. sphaeroides 24 c1rkcA_ not modelled 5.4 11 PDB header:cell adhesion, structural protein Chain: A: PDB Molecule:vinculin; PDBTitle: human vinculin head (1-258) in complex with talin's2 vinculin binding site 3 (residues 1944-1969) 25 c1iijA_ not modelled 5.3 37 PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment 26 d1st6a3 not modelled 5.3 9 Fold:Four-helical up-and-down bundle Superfamily:alpha-catenin/vinculin-like Family:alpha-catenin/vinculin

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