Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	K	R	K	K	V	K	P	I	T	L	R	D	V	T	I	I	D	D	G	K	L	R	K	A	I	T	A	A	S	L	G	N	A	M	E	W	F	D	F	G	V	Y	G	F	V	A	Y	A	L	G	K	V	F	F	P	G	A	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	S	V	Q	M	V	A	A	L	A	T	F	S	V	P	F	L	I	R	P	L	G	G	L	F	F	G	M	L	G	D	K	Y	G	R	Q	K	I	L	A	I	T	I	V	I	M	S	I	S	T	F	C	I	G	L	I	P	S	Y	D
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	I	G	I	W	A	P	I	L	L	L	I	C	K	M	A	Q	G	F	S	V	G	G	E	Y	T	G	A	S	I	F	V	A	E	Y	S	P	D	R	K	R	G	F	M	G	S	W	L	D	F	G	S	I	A	G	F	V	L	G	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	V	V	V	L	I	S	T	I	V	G	E	A	N	F	L	D	W	G	W	R	I	P	F	F	I	A	L	P	L	G	I	I	G	L	Y	L	R	H	A	L	E	E	T	P	A	F	Q	Q	H	V	D	K	L	E	Q	G	D	R	E
Secondary structure
SS confidence
Disorder																																																						?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	L	Q	D	G	P	K	V	S	F	K	E	I	A	T	K	Y	W	R	S	L	L	T	C	I	G	L	V	I	A	T	N	V	T	Y	Y	M	L	L	T	Y	M	P	S	Y	L	S	H	N	L	H	Y	S	E	D	H	G	V	L	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	I	A	I	M	I	G	M	L	F	V	Q	P	V	M	G	L	L	S	D	R	F	G	R	R	P	F	V	L	L	G	S	V	A	L	F	V	L	A	I	P	A	F	I	L	I	N	S	N	V	I	G	L	I	F	A	G	L	L	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		L	A	V	I	L	N	C	F	T	G	V	M	A	S	T	L	P	A	M	F	P	T	H	I	R	Y	S	A	L	A	A	A	F	N	I	S	V	L	V	A	G	L	T	P	T	L	A	A	W	L	V	E	S	S	Q	N	L	M	M	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		A	Y	Y	L	M	V	V	A	V	V	G	L	I	T	G	V	T	M	K	E	T	A	N	R	P	L	K	G	A	T	P	A	A	S	D	I	Q	E	A	K	E	I	L	V	E	H	Y	D	N	I	E	Q	K	I	D	D	I	D	H	E
Secondary structure
SS confidence
Disorder																										?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?	?			?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500
Sequence		I	A	D	L	Q	A	K	R	T	R	L	V	Q	Q	H	P	R	I	D	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 1pw4 chain A Region: 5 - 451 Aligned: 424 Modelled: 435 Confidence: 100.0% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 25 - 441 Aligned: 400 Modelled: 417 Confidence: 100.0% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) Phyre2 PDB 1pv7 chain A Region: 20 - 452 Aligned: 411 Modelled: 417 Confidence: 100.0% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2gfp chain A Region: 27 - 438 Aligned: 374 Modelled: 399 Confidence: 100.0% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 2xut chain C Region: 27 - 437 Aligned: 401 Modelled: 411 Confidence: 99.9% Identity: 9% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 1r48 chain A Region: 468 - 497 Aligned: 30 Modelled: 30 Confidence: 97.3% Identity: 100% PDB header:transport protein Chain: A: PDB Molecule:proline/betaine transporter; PDBTitle: solution structure of the c-terminal cytoplasmic domain2 residues 468-497 of escherichia coli protein prop Phyre2 PDB 3b9y chain A Region: 322 - 487 Aligned: 160 Modelled: 166 Confidence: 50.5% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 3org chain B Region: 339 - 500 Aligned: 160 Modelled: 162 Confidence: 24.5% Identity: 11% PDB header:transport protein Chain: B: PDB Molecule:cmclc; PDBTitle: crystal structure of a eukaryotic clc transporter Phyre2 PDB 2g9p chain A Region: 85 - 98 Aligned: 14 Modelled: 14 Confidence: 17.1% Identity: 50% PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom Phyre2 PDB 2l5g chain B Region: 459 - 496 Aligned: 38 Modelled: 38 Confidence: 8.6% Identity: 26% PDB header:transcription regulator Chain: B: PDB Molecule:putative uncharacterized protein ncor2; PDBTitle: co-ordinates and 1h, 13c and 15n chemical shift assignments for the2 complex of gps2 53-90 and smrt 167-207 Phyre2 PDB 3bz6 chain A domain 2 Region: 430 - 500 Aligned: 69 Modelled: 71 Confidence: 7.5% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: PSPTO2686-like Phyre2 PDB 3qnq chain D Region: 404 - 456 Aligned: 53 Modelled: 53 Confidence: 7.3% Identity: 15% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 1a92 chain B Region: 471 - 496 Aligned: 26 Modelled: 26 Confidence: 6.4% Identity: 19% PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen Phyre2 1 d1pw4a_ 2 c3o7pA_ 3 d1pv7a_ 4 c2gfpA_ 5 c2xutC_ 6 c1r48A_ 7 c3b9yA_ 8 c3orgB_ 9 c2g9pA_ 10 c2l5gB_ 11 d3bz6a2 12 c3qnqD_ 13 c1a92B_

Detailed template information

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

1 d1pw4a_ 100.0 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 c3o7pA_ 100.0 9 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 3 d1pv7a_ 100.0 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 4 c2gfpA_ 100.0 13 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 5 c2xutC_ 99.9 9 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 6 c1r48A_ 97.3 100 PDB header:transport protein Chain: A: PDB Molecule:proline/betaine transporter; PDBTitle: solution structure of the c-terminal cytoplasmic domain2 residues 468-497 of escherichia coli protein prop 7 c3b9yA_ 50.5 13 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 8 c3orgB_ 24.5 11 PDB header:transport protein Chain: B: PDB Molecule:cmclc; PDBTitle: crystal structure of a eukaryotic clc transporter 9 c2g9pA_ 17.1 50 PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom 10 c2l5gB_ 8.6 26 PDB header:transcription regulator Chain: B: PDB Molecule:putative uncharacterized protein ncor2; PDBTitle: co-ordinates and 1h, 13c and 15n chemical shift assignments for the2 complex of gps2 53-90 and smrt 167-207 11 d3bz6a2 7.5 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PSPTO2686-like 12 c3qnqD_ 7.3 15 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 13 c1a92B_ 6.4 19 PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen

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