Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	Q	L	T	M	K	D	K	I	G	Y	G	L	G	D	T	A	C	G	F	V	W	Q	A	T	M	F	L	L	A	Y	F	Y	T	D	V	F	G	L	S	A	G	I	M	G	T	L	F	L	V	S	R	V	L	D	A	V	T	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	L	M	G	L	L	V	D	R	T	R	T	R	H	G	Q	F	R	P	F	L	L	W	G	A	I	P	F	G	I	V	C	V	L	T	F	Y	T	P	D	F	S	A	Q	G	K	I	I	Y	A	C	V	T	Y	I	L	L	T	L	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Y	T	F	V	N	V	P	Y	C	A	M	P	G	V	I	T	A	D	P	K	E	R	H	A	L	Q	S	W	R	F	F	L	A	A	A	G	S	L	A	I	S	G	I	A	L	P	L	V	S	I	I	G	K	G	D	E	Q	V	G	Y
Secondary structure
SS confidence
Disorder																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	G	A	M	C	V	L	G	L	S	G	V	V	L	L	Y	V	C	F	F	T	T	K	E	R	Y	T	F	E	V	Q	P	G	S	S	V	A	K	D	L	K	L	L	L	G	N	S	Q	W	R	I	M	C	A	F	K	M	M	A	T
Secondary structure
SS confidence
Disorder																									?		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		C	S	N	V	V	R	G	G	A	T	L	Y	F	V	K	Y	V	M	D	H	P	E	L	A	T	Q	F	L	L	Y	G	S	L	A	T	M	F	G	S	L	C	S	S	R	L	L	G	R	F	D	R	V	T	A	F	K	W	I	I	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	Y	S	L	I	S	L	L	I	F	V	T	P	A	E	H	I	A	L	I	F	A	L	N	I	L	F	L	F	V	F	N	T	T	T	P	L	Q	W	L	M	A	S	D	V	V	D	Y	E	E	S	R	S	G	R	R	L	D	G	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		V	F	S	T	Y	L	F	S	L	K	I	G	L	A	I	G	G	A	V	V	G	W	I	L	A	Y	V	N	Y	S	A	S	S	S	V	Q	P	V	E	V	L	T	T	I	K	I	L	F	C	V	V	P	V	V	L	Y	A	G	M	F
Secondary structure
SS confidence
Disorder																																		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460
Sequence		I	M	L	S	L	Y	K	L	T	D	A	R	V	E	A	I	S	R	Q	L	I	K	H	R	A	A	Q	G	E	A	V	P	D	A	A	T	A	A	S	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 1pv7 chain A Region: 1 - 441 Aligned: 414 Modelled: 421 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 - 440 Aligned: 408 Modelled: 424 Confidence: 100.0% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 7 - 429 Aligned: 386 Modelled: 408 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 2gfp chain A Region: 10 - 418 Aligned: 368 Modelled: 396 Confidence: 99.9% 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: 14 - 422 Aligned: 387 Modelled: 404 Confidence: 99.8% Identity: 11% 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 3b9y chain A Region: 270 - 455 Aligned: 165 Modelled: 170 Confidence: 33.9% Identity: 14% 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 3qnq chain D Region: 367 - 451 Aligned: 79 Modelled: 85 Confidence: 33.9% Identity: 16% 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 2hjm chain B Region: 408 - 449 Aligned: 42 Modelled: 42 Confidence: 33.0% Identity: 10% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus Phyre2 PDB 2b5u chain A domain 2 Region: 427 - 452 Aligned: 26 Modelled: 26 Confidence: 21.0% Identity: 12% Fold: Cloacin translocation domain Superfamily: Cloacin translocation domain Family: Cloacin translocation domain Phyre2 PDB 2w8a chain C Region: 306 - 450 Aligned: 130 Modelled: 145 Confidence: 17.7% Identity: 14% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 2f23 chain A domain 1 Region: 426 - 460 Aligned: 35 Modelled: 35 Confidence: 15.5% Identity: 29% Fold: Long alpha-hairpin Superfamily: GreA transcript cleavage protein, N-terminal domain Family: GreA transcript cleavage protein, N-terminal domain Phyre2 PDB 2cqe chain A domain 1 Region: 427 - 456 Aligned: 30 Modelled: 30 Confidence: 13.5% Identity: 20% Fold: CCCH zinc finger Superfamily: CCCH zinc finger Family: CCCH zinc finger Phyre2 PDB 1by0 chain A Region: 430 - 455 Aligned: 26 Modelled: 26 Confidence: 13.3% Identity: 19% PDB header:rna binding protein Chain: A: PDB Molecule:protein (hepatitis delta antigen); PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen Phyre2 PDB 2axc chain A Region: 427 - 452 Aligned: 26 Modelled: 26 Confidence: 11.5% Identity: 23% PDB header:hydrolase Chain: A: PDB Molecule:colicin e7; PDBTitle: crystal structure of cole7 translocation domain Phyre2 PDB 1zi7 chain C Region: 430 - 450 Aligned: 21 Modelled: 21 Confidence: 10.9% Identity: 29% PDB header:lipid binding protein Chain: C: PDB Molecule:kes1 protein; PDBTitle: structure of truncated yeast oxysterol binding protein osh4 Phyre2 PDB 1zhx chain A domain 1 Region: 430 - 450 Aligned: 21 Modelled: 21 Confidence: 9.7% Identity: 29% Fold: Oxysterol-binding protein-like Superfamily: Oxysterol-binding protein-like Family: Oxysterol-binding protein Phyre2 PDB 1noh chain B Region: 427 - 449 Aligned: 23 Modelled: 23 Confidence: 8.1% Identity: 30% PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly Phyre2 PDB 3hd6 chain A Region: 212 - 459 Aligned: 221 Modelled: 234 Confidence: 8.0% 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 1a92 chain B Region: 430 - 455 Aligned: 26 Modelled: 26 Confidence: 7.9% Identity: 19% PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen Phyre2 PDB 1f6g chain A Region: 388 - 453 Aligned: 66 Modelled: 66 Confidence: 7.7% Identity: 9% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 1 d1pv7a_ 2 d1pw4a_ 3 c3o7pA_ 4 c2gfpA_ 5 c2xutC_ 6 c3b9yA_ 7 c3qnqD_ 8 c2hjmB_ 9 d2b5ua2 10 c2w8aC_ 11 d2f23a1 12 d2cqea1 13 c1by0A_ 14 c2axcA_ 15 c1zi7C_ 16 d1zhxa1 17 c1nohB_ 18 c3hd6A_ 19 c1a92B_ 20 d1f6ga_ 21 22 23 24 25 26 27 28

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 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 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) 4 c2gfpA_ 99.9 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_ 99.8 11 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 c3b9yA_ 33.9 14 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 7 c3qnqD_ 33.9 16 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 8 c2hjmB_ 33.0 10 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus 9 d2b5ua2 21.0 12 Fold:Cloacin translocation domain Superfamily:Cloacin translocation domain Family:Cloacin translocation domain 10 c2w8aC_ 17.7 14 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 11 d2f23a1 15.5 29 Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain 12 d2cqea1 13.5 20 Fold:CCCH zinc finger Superfamily:CCCH zinc finger Family:CCCH zinc finger 13 c1by0A_ 13.3 19 PDB header:rna binding protein Chain: A: PDB Molecule:protein (hepatitis delta antigen); PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen 14 c2axcA_ 11.5 23 PDB header:hydrolase Chain: A: PDB Molecule:colicin e7; PDBTitle: crystal structure of cole7 translocation domain 15 c1zi7C_ 10.9 29 PDB header:lipid binding protein Chain: C: PDB Molecule:kes1 protein; PDBTitle: structure of truncated yeast oxysterol binding protein osh4 16 d1zhxa1 9.7 29 Fold:Oxysterol-binding protein-like Superfamily:Oxysterol-binding protein-like Family:Oxysterol-binding protein 17 c1nohB_ 8.1 30 PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly 18 c3hd6A_ 8.0 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 19 c1a92B_ 7.9 19 PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen 20 d1f6ga_ 7.7 9 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 21 d1lr1a_ not modelled 7.3 10 Fold:H-NS histone-like proteins Superfamily:H-NS histone-like proteins Family:H-NS histone-like proteins 22 d1u69a_ not modelled 7.1 18 Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:3-demethylubiquinone-9 3-methyltransferase 23 c3jqhA_ not modelled 7.0 29 PDB header:sugar binding protein Chain: A: PDB Molecule:c-type lectin domain family 4 member m; PDBTitle: structure of the neck region of the glycan-binding receptor2 dc-signr 24 d1r3jc_ not modelled 6.5 6 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 25 d1q1la_ not modelled 6.3 22 Fold:Chorismate synthase, AroC Superfamily:Chorismate synthase, AroC Family:Chorismate synthase, AroC 26 d1cooa_ not modelled 5.6 16 Fold:SAM domain-like Superfamily:C-terminal domain of RNA polymerase alpha subunit Family:C-terminal domain of RNA polymerase alpha subunit 27 c1m46B_ not modelled 5.6 18 PDB header:cell cycle protein Chain: B: PDB Molecule:iq4 motif from myo2p, a class v myosin; PDBTitle: crystal structure of mlc1p bound to iq4 of myo2p, a class v2 myosin 28 c2kb1A_ not modelled 5.4 9 PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa

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