Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	R	N	V	T	L	D	F	V	R	G	V	A	I	L	G	I	L	L	L	N	I	S	A	F	G	L	P	K	A	A	Y	L	N	P	A	W	Y	G	A	I	T	P	R	D	A	W	T	W	A	F	L	D	L	I	G	Q	V	K
Secondary structure
SS confidence
Disorder		?	?																											?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	L	T	L	F	A	L	L	F	G	A	G	L	Q	M	L	L	P	R	G	R	R	W	I	Q	S	R	L	T	L	L	V	L	L	G	F	I	H	G	L	L	F	W	D	G	D	I	L	L	A	Y	G	L	V	G	L	I	C	W	R
Secondary structure
SS confidence
Disorder																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	V	R	D	A	P	S	V	K	S	L	F	N	T	G	V	M	L	Y	L	V	G	L	G	V	L	L	L	L	G	L	I	S	D	S	Q	T	S	R	A	W	T	P	D	A	S	A	I	L	Y	E	K	Y	W	K	L	H	G	G	V
Secondary structure
SS confidence
Disorder																																?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		E	A	I	S	N	R	A	D	G	V	G	N	S	L	L	A	L	G	A	Q	Y	G	W	Q	L	A	G	M	M	L	I	G	A	A	L	M	R	S	G	W	L	K	G	Q	F	S	L	R	H	Y	R	R	T	G	F	V	L	V	A	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	V	T	I	N	L	P	A	I	A	L	Q	W	Q	L	D	W	A	Y	R	W	C	A	F	L	L	Q	M	P	R	E	L	S	A	P	F	Q	A	I	G	Y	A	S	L	F	Y	G	F	W	P	Q	L	S	R	F	K	L	V	L	A
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	A	C	V	G	R	M	A	L	T	N	Y	L	L	Q	T	L	I	C	T	T	L	F	Y	H	L	G	L	F	M	H	F	D	R	L	E	L	L	A	F	V	I	P	V	W	L	A	N	I	L	F	S	V	I	W	L	R	Y	F	R
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.
Sequence		Q	G	P	V	E	W	L	W	R	Q	L	T	L	R	A	A	G	P	A	I	S	K	T	S	R
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 3cx5 chain D domain 2 Region: 338 - 378 Aligned: 39 Modelled: 41 Confidence: 14.9% Identity: 18% Fold: Single transmembrane helix Superfamily: Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family: Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Phyre2 PDB 3ady chain A Region: 361 - 373 Aligned: 13 Modelled: 13 Confidence: 8.9% Identity: 31% PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella Phyre2 PDB 1ei5 chain A domain 2 Region: 366 - 378 Aligned: 13 Modelled: 13 Confidence: 6.6% Identity: 38% Fold: Streptavidin-like Superfamily: D-aminopeptidase, middle and C-terminal domains Family: D-aminopeptidase, middle and C-terminal domains Phyre2 PDB 3geb chain C Region: 362 - 374 Aligned: 12 Modelled: 13 Confidence: 6.5% Identity: 50% PDB header:hydrolase Chain: C: PDB Molecule:eyes absent homolog 2; PDBTitle: crystal structure of edeya2 Phyre2 PDB 1pzq chain A Region: 364 - 385 Aligned: 22 Modelled: 22 Confidence: 5.9% Identity: 36% Fold: Dimerisation interlock Superfamily: Docking domain A of the erythromycin polyketide synthase (DEBS) Family: Docking domain A of the erythromycin polyketide synthase (DEBS) Phyre2 PDB 1ppj chain D domain 2 Region: 338 - 376 Aligned: 37 Modelled: 37 Confidence: 5.8% Identity: 14% Fold: Single transmembrane helix Superfamily: Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family: Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Phyre2 PDB 2knc chain A Region: 329 - 385 Aligned: 43 Modelled: 43 Confidence: 5.6% Identity: 9% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2wwb chain B Region: 301 - 318 Aligned: 18 Modelled: 18 Confidence: 5.5% Identity: 22% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome Phyre2 PDB 3i71 chain B Region: 363 - 385 Aligned: 23 Modelled: 23 Confidence: 5.4% Identity: 30% PDB header:unknown function Chain: B: PDB Molecule:ethanolamine utilization protein eutk; PDBTitle: ethanolamine utilization microcompartment shell subunit, eutk c-2 terminal domain Phyre2 1 d3cx5d2 2 c3adyA_ 3 d1ei5a2 4 c3gebC_ 5 d1pzqa_ 6 d1ppjd2 7 c2kncA_ 8 c2wwbB_ 9 c3i71B_

Detailed template information

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

1 d3cx5d2 14.9 18 Fold:Single transmembrane helix Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor 2 c3adyA_ 8.9 31 PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella 3 d1ei5a2 6.6 38 Fold:Streptavidin-like Superfamily:D-aminopeptidase, middle and C-terminal domains Family:D-aminopeptidase, middle and C-terminal domains 4 c3gebC_ 6.5 50 PDB header:hydrolase Chain: C: PDB Molecule:eyes absent homolog 2; PDBTitle: crystal structure of edeya2 5 d1pzqa_ 5.9 36 Fold:Dimerisation interlock Superfamily:Docking domain A of the erythromycin polyketide synthase (DEBS) Family:Docking domain A of the erythromycin polyketide synthase (DEBS) 6 d1ppjd2 5.8 14 Fold:Single transmembrane helix Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor 7 c2kncA_ 5.6 9 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 8 c2wwbB_ 5.5 22 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome 9 c3i71B_ 5.4 30 PDB header:unknown function Chain: B: PDB Molecule:ethanolamine utilization protein eutk; PDBTitle: ethanolamine utilization microcompartment shell subunit, eutk c-2 terminal domain

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