Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	I	K	R	S	I	E	K	I	P	G	G	M	M	L	V	P	L	F	L	G	A	L	C	H	T	F	S	P	G	A	G	K	Y	F	G	S	F	T	N	G	M	I	T	G	T	V	P	I	L	A	V	W	F	F	C	M	G	A
Secondary structure
SS confidence
Disorder		?	?	?				?																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	I	K	L	S	A	T	G	T	V	L	R	K	S	G	T	L	V	V	T	K	I	A	V	A	W	V	V	A	A	I	A	S	R	I	I	P	E	H	G	V	E	V	G	F	F	A	G	L	S	T	L	A	L	V	A	A	M	D	M
Secondary structure
SS confidence
Disorder			?	?				?	?	?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	N	G	G	L	Y	A	S	I	M	Q	Q	Y	G	T	K	E	E	A	G	A	F	V	L	M	S	L	E	S	G	P	L	M	T	M	I	I	L	G	T	A	G	I	A	S	F	E	P	H	V	F	V	G	A	V	L	P	F	L	V
Secondary structure
SS confidence
Disorder																																									?			?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	F	A	L	G	N	L	D	P	E	L	R	E	F	F	S	K	A	V	Q	T	L	I	P	F	F	A	F	A	L	G	N	T	I	D	L	T	V	I	A	Q	T	G	L	L	G	I	L	L	G	V	A	V	I	I	V	T	G	I	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	I	I	A	D	K	L	I	G	G	G	D	G	T	A	G	I	A	A	S	S	S	A	G	A	A	V	A	T	P	V	L	I	A	E	M	V	P	A	F	K	P	M	A	P	A	A	T	S	L	V	A	T	A	V	I	V	T	S	I
Secondary structure
SS confidence
Disorder										?			?		?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.
Sequence		L	V	P	I	L	T	S	I	W	S	R	K	V	K	A	R	A	A	K	I	E	I	L	G	T	V	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 1iwg chain A domain 8 Region: 208 - 316 Aligned: 106 Modelled: 109 Confidence: 31.5% Identity: 20% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 1ej5 chain A Region: 181 - 198 Aligned: 18 Modelled: 18 Confidence: 16.6% Identity: 61% Fold: Wiscott-Aldrich syndrome protein, WASP, C-terminal domain Superfamily: Wiscott-Aldrich syndrome protein, WASP, C-terminal domain Family: Wiscott-Aldrich syndrome protein, WASP, C-terminal domain Phyre2 PDB 2itb chain A domain 1 Region: 124 - 141 Aligned: 18 Modelled: 18 Confidence: 14.0% Identity: 17% Fold: Ferritin-like Superfamily: Ferritin-like Family: MiaE-like Phyre2 PDB 2d6y chain A domain 1 Region: 92 - 138 Aligned: 38 Modelled: 47 Confidence: 9.4% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 1avo chain A Region: 24 - 31 Aligned: 8 Modelled: 8 Confidence: 9.1% Identity: 25% PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) Phyre2 PDB 2o01 chain J Region: 23 - 39 Aligned: 16 Modelled: 17 Confidence: 8.8% Identity: 31% PDB header:photosynthesis Chain: J: PDB Molecule:photosystem i reaction center subunit ix; PDBTitle: the structure of a plant photosystem i supercomplex at 3.42 angstrom resolution Phyre2 PDB 3aqp chain B Region: 142 - 319 Aligned: 132 Modelled: 133 Confidence: 8.5% Identity: 18% PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus Phyre2 PDB 2nww chain A domain 1 Region: 15 - 98 Aligned: 84 Modelled: 84 Confidence: 7.9% Identity: 27% Fold: Proton glutamate symport protein Superfamily: Proton glutamate symport protein Family: Proton glutamate symport protein Phyre2 PDB 2k3u chain A Region: 184 - 200 Aligned: 17 Modelled: 17 Confidence: 6.1% Identity: 41% PDB header:immune system Chain: A: PDB Molecule:chemotaxis inhibitory protein; PDBTitle: structure of the tyrosine-sulfated c5a receptor n-terminus2 in complex with the immune evasion protein chips. Phyre2 PDB 1r3j chain C Region: 275 - 319 Aligned: 45 Modelled: 45 Confidence: 5.1% Identity: 9% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 1 d1iwga8 2 d1ej5a_ 3 d2itba1 4 d2d6ya1 5 c1avoA_ 6 c2o01J_ 7 c3aqpB_ 8 d2nwwa1 9 c2k3uA_ 10 d1r3jc_

Detailed template information

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

1 d1iwga8 31.5 20 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 2 d1ej5a_ 16.6 61 Fold:Wiscott-Aldrich syndrome protein, WASP, C-terminal domain Superfamily:Wiscott-Aldrich syndrome protein, WASP, C-terminal domain Family:Wiscott-Aldrich syndrome protein, WASP, C-terminal domain 3 d2itba1 14.0 17 Fold:Ferritin-like Superfamily:Ferritin-like Family:MiaE-like 4 d2d6ya1 9.4 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 5 c1avoA_ 9.1 25 PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) 6 c2o01J_ 8.8 31 PDB header:photosynthesis Chain: J: PDB Molecule:photosystem i reaction center subunit ix; PDBTitle: the structure of a plant photosystem i supercomplex at 3.42 angstrom resolution 7 c3aqpB_ 8.5 18 PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus 8 d2nwwa1 7.9 27 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein 9 c2k3uA_ 6.1 41 PDB header:immune system Chain: A: PDB Molecule:chemotaxis inhibitory protein; PDBTitle: structure of the tyrosine-sulfated c5a receptor n-terminus2 in complex with the immune evasion protein chips. 10 d1r3jc_ 5.1 9 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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