Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	I	S	M	T	T	K	L	S	Y	G	F	G	A	F	G	K	D	F	A	I	G	I	V	Y	M	Y	L	M	Y	Y	Y	T	D	V	V	G	L	S	V	G	L	V	G	T	L	F	L	V	A	R	I	W	D	A	I	N	D	P
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	M	G	W	I	V	N	A	T	R	S	R	W	G	K	F	K	P	W	I	L	I	G	T	L	A	N	S	V	I	L	F	L	L	F	S	A	H	L	F	E	G	T	T	Q	I	V	F	V	C	V	T	Y	I	L	W	G	M	T	Y
Secondary structure
SS confidence
Disorder																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	I	M	D	I	P	F	W	S	L	V	P	T	I	T	L	D	K	R	E	R	E	Q	L	V	P	Y	P	R	F	F	A	S	L	A	G	F	V	T	A	G	V	T	L	P	F	V	N	Y	V	G	G	G	D	R	G	F	G	F	Q
Secondary structure
SS confidence
Disorder																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		M	F	T	L	V	L	I	A	F	F	I	V	S	T	I	I	T	L	R	N	V	H	E	V	F	S	S	D	N	Q	P	S	A	E	G	S	H	L	T	L	K	A	I	V	A	L	I	Y	K	N	D	Q	L	S	C	L	L	G	M	A
Secondary structure
SS confidence
Disorder																										?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	A	Y	N	V	A	S	N	I	I	T	G	F	A	I	Y	Y	F	S	Y	V	I	G	D	A	D	L	F	P	Y	Y	L	S	Y	A	G	A	A	N	L	V	T	L	V	F	F	P	R	L	V	K	S	L	S	R	R	I	L	W	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	A	S	I	L	P	V	L	S	C	G	V	L	L	L	M	A	L	M	S	Y	H	N	V	V	L	I	V	I	A	G	I	L	L	N	V	G	T	A	L	F	W	V	L	Q	V	I	M	V	A	D	I	V	D	Y	G	E	Y	K	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		H	V	R	C	E	S	I	A	Y	S	V	Q	T	M	V	V	K	G	G	S	A	F	A	A	F	F	I	A	V	V	L	G	M	I	G	Y	V	P	N	V	E	Q	S	T	Q	A	L	L	G	M	Q	F	I	M	I	A	L	P	T	L
Secondary structure
SS confidence
Disorder																																									?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.
Sequence		F	F	M	V	T	L	I	L	Y	F	R	F	Y	R	L	N	G	D	T	L	R	R	I	Q	I	H	L	L	D	K	Y	R	K	V	P	P	E	P	V	H	A	D	I	P	V	G	A	V	S	D	V	K	A
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 1pv7 chain A Region: 3 - 449 Aligned: 412 Modelled: 427 Confidence: 100.0% Identity: 12% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 1pw4 chain A Region: 2 - 447 Aligned: 411 Modelled: 428 Confidence: 100.0% Identity: 12% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2gfp chain A Region: 9 - 435 Aligned: 373 Modelled: 388 Confidence: 99.9% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 3o7p chain A Region: 11 - 436 Aligned: 387 Modelled: 412 Confidence: 99.9% Identity: 12% 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 2xut chain C Region: 13 - 424 Aligned: 396 Modelled: 407 Confidence: 99.8% Identity: 12% 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 3qnq chain D Region: 374 - 458 Aligned: 79 Modelled: 85 Confidence: 85.4% Identity: 13% 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 3hd6 chain A Region: 215 - 459 Aligned: 220 Modelled: 245 Confidence: 49.9% Identity: 10% 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 3b9y chain A Region: 262 - 472 Aligned: 184 Modelled: 194 Confidence: 39.8% Identity: 12% 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 3d9s chain B Region: 412 - 452 Aligned: 41 Modelled: 41 Confidence: 19.0% Identity: 20% PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure Phyre2 PDB 1grj chain A domain 1 Region: 433 - 470 Aligned: 38 Modelled: 38 Confidence: 16.3% Identity: 13% Fold: Long alpha-hairpin Superfamily: GreA transcript cleavage protein, N-terminal domain Family: GreA transcript cleavage protein, N-terminal domain Phyre2 PDB 2f9j chain P Region: 442 - 466 Aligned: 25 Modelled: 25 Confidence: 15.6% Identity: 24% PDB header:rna binding protein Chain: P: PDB Molecule:splicing factor 3b subunit 1; PDBTitle: 3.0 angstrom resolution structure of a y22m mutant of the spliceosomal2 protein p14 bound to a region of sf3b155 Phyre2 PDB 2ia9 chain A domain 1 Region: 432 - 460 Aligned: 29 Modelled: 29 Confidence: 14.4% Identity: 21% Fold: SpoVG-like Superfamily: SpoVG-like Family: SpoVG-like Phyre2 PDB 2xzm chain V Region: 442 - 470 Aligned: 29 Modelled: 29 Confidence: 8.7% Identity: 17% PDB header:ribosome Chain: V: PDB Molecule:rps17e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 1u69 chain A Region: 63 - 73 Aligned: 11 Modelled: 11 Confidence: 8.2% Identity: 27% Fold: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family: 3-demethylubiquinone-9 3-methyltransferase Phyre2 PDB 2f23 chain A domain 1 Region: 433 - 470 Aligned: 37 Modelled: 38 Confidence: 8.1% Identity: 19% Fold: Long alpha-hairpin Superfamily: GreA transcript cleavage protein, N-terminal domain Family: GreA transcript cleavage protein, N-terminal domain Phyre2 PDB 3e56 chain A Region: 436 - 473 Aligned: 38 Modelled: 38 Confidence: 7.3% Identity: 21% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the 2.0 angstrom resolution crystal structure of npr1517, a putative2 heterocyst differentiation inhibitor from nostoc punctiforme Phyre2 PDB 2ygg chain A Region: 433 - 456 Aligned: 24 Modelled: 24 Confidence: 6.7% Identity: 21% PDB header:metal binding protein/transport protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: complex of cambr and cam Phyre2 PDB 3qx3 chain B Region: 427 - 456 Aligned: 30 Modelled: 30 Confidence: 6.3% Identity: 20% PDB header:isomerase/dna/isomerase inhibitor Chain: B: PDB Molecule:dna topoisomerase 2-beta; PDBTitle: human topoisomerase iibeta in complex with dna and etoposide Phyre2 PDB 1q0w chain A Region: 433 - 458 Aligned: 26 Modelled: 24 Confidence: 6.1% Identity: 23% PDB header:transport protein Chain: A: PDB Molecule:vacuolar protein sorting-associated protein PDBTitle: solution structure of vps27 amino-terminal uim-ubiquitin2 complex Phyre2 PDB 1ymg chain A domain 1 Region: 412 - 448 Aligned: 37 Modelled: 37 Confidence: 6.0% Identity: 11% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 1 d1pv7a_ 2 d1pw4a_ 3 c2gfpA_ 4 c3o7pA_ 5 c2xutC_ 6 c3qnqD_ 7 c3hd6A_ 8 c3b9yA_ 9 c3d9sB_ 10 d1grja1 11 c2f9jP_ 12 d2ia9a1 13 c2xzmV_ 14 d1u69a_ 15 d2f23a1 16 c3e56A_ 17 c2yggA_ 18 c3qx3B_ 19 c1q0wA_ 20 d1ymga1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41

Detailed template information

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

1 d1pv7a_ 100.0 12 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 2 d1pw4a_ 100.0 12 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 c2gfpA_ 99.9 12 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 4 c3o7pA_ 99.9 12 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 5 c2xutC_ 99.8 12 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 c3qnqD_ 85.4 13 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 7 c3hd6A_ 49.9 10 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 8 c3b9yA_ 39.8 12 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 9 c3d9sB_ 19.0 20 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure 10 d1grja1 16.3 13 Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain 11 c2f9jP_ 15.6 24 PDB header:rna binding protein Chain: P: PDB Molecule:splicing factor 3b subunit 1; PDBTitle: 3.0 angstrom resolution structure of a y22m mutant of the spliceosomal2 protein p14 bound to a region of sf3b155 12 d2ia9a1 14.4 21 Fold:SpoVG-like Superfamily:SpoVG-like Family:SpoVG-like 13 c2xzmV_ 8.7 17 PDB header:ribosome Chain: V: PDB Molecule:rps17e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 14 d1u69a_ 8.2 27 Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:3-demethylubiquinone-9 3-methyltransferase 15 d2f23a1 8.1 19 Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain 16 c3e56A_ 7.3 21 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the 2.0 angstrom resolution crystal structure of npr1517, a putative2 heterocyst differentiation inhibitor from nostoc punctiforme 17 c2yggA_ 6.7 21 PDB header:metal binding protein/transport protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: complex of cambr and cam 18 c3qx3B_ 6.3 20 PDB header:isomerase/dna/isomerase inhibitor Chain: B: PDB Molecule:dna topoisomerase 2-beta; PDBTitle: human topoisomerase iibeta in complex with dna and etoposide 19 c1q0wA_ 6.1 23 PDB header:transport protein Chain: A: PDB Molecule:vacuolar protein sorting-associated protein PDBTitle: solution structure of vps27 amino-terminal uim-ubiquitin2 complex 20 d1ymga1 6.0 11 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 21 c1ymgA_ not modelled 6.0 11 PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution 22 c3bpqC_ not modelled 5.9 13 PDB header:toxin Chain: C: PDB Molecule:antitoxin relb3; PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii 23 c1xaoA_ not modelled 5.9 18 PDB header:chaperone Chain: A: PDB Molecule:mitochondrial protein import protein mas5; PDBTitle: hsp40-ydj1 dimerization domain 24 c1qysA_ not modelled 5.9 16 PDB header:de novo protein Chain: A: PDB Molecule:top7; PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold 25 c1v9xA_ not modelled 5.8 8 PDB header:transferase Chain: A: PDB Molecule:poly (adp-ribose) polymerase; PDBTitle: solution structure of the first zn-finger domain of2 poly(adp-ribose) polymerase-1 26 c1ji6A_ not modelled 5.8 8 PDB header:toxin Chain: A: PDB Molecule:pesticidial crystal protein cry3bb; PDBTitle: crystal structure of the insecticidal bacterial del2 endotoxin cry3bb1 bacillus thuringiensis 27 c1zi7C_ not modelled 5.7 14 PDB header:lipid binding protein Chain: C: PDB Molecule:kes1 protein; PDBTitle: structure of truncated yeast oxysterol binding protein osh4 28 c1zvuA_ not modelled 5.6 13 PDB header:isomerase Chain: A: PDB Molecule:topoisomerase iv subunit a; PDBTitle: structure of the full-length e. coli parc subunit 29 c1zxaB_ not modelled 5.5 10 PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia 30 c3i05B_ not modelled 5.5 20 PDB header:ligase Chain: B: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: tryptophanyl-trna synthetase from trypanosoma brucei 31 c1bjtA_ not modelled 5.5 13 PDB header:topoisomerase Chain: A: PDB Molecule:topoisomerase ii; PDBTitle: topoisomerase ii residues 409-1201 32 d1bjta_ not modelled 5.5 13 Fold:Type II DNA topoisomerase Superfamily:Type II DNA topoisomerase Family:Type II DNA topoisomerase 33 d1zhxa1 not modelled 5.4 14 Fold:Oxysterol-binding protein-like Superfamily:Oxysterol-binding protein-like Family:Oxysterol-binding protein 34 c3kk1B_ not modelled 5.4 6 PDB header:transferase/dna Chain: B: PDB Molecule:reverse transcriptase p51 subunit; PDBTitle: hiv-1 reverse transcriptase-dna complex with nuceotide inhibitor gs-2 9148-diphosphate bound in nucleotide site 35 d1uw0a_ not modelled 5.3 15 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:PARP-type zinc finger 36 c2qjkM_ not modelled 5.3 13 PDB header:electron transport Chain: M: PDB Molecule:cytochrome b; PDBTitle: crystal structure analysis of mutant rhodobacter2 sphaeroides bc1 with stigmatellin and antimycin 37 c2wl2B_ not modelled 5.3 17 PDB header:isomerase Chain: B: PDB Molecule:dna gyrase subunit a; PDBTitle: crystal structure of n-terminal domain of gyra with the2 antibiotic simocyclinone d8 38 d2zd1b1 not modelled 5.2 6 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Reverse transcriptase 39 d2cqea1 not modelled 5.1 14 Fold:CCCH zinc finger Superfamily:CCCH zinc finger Family:CCCH zinc finger 40 c1rthA_ not modelled 5.1 6 PDB header:nucleotidyltransferase Chain: A: PDB Molecule:hiv-1 reverse transcriptase; PDBTitle: high resolution structures of hiv-1 rt from four rt-2 inhibitor complexes 41 d1hara_ not modelled 5.0 6 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Reverse transcriptase

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