Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	L	A	K	A	S	L	W	T	A	A	S	T	L	V	K	I	G	A	G	L	L	V	G	K	L	L	A	V	S	F	G	P	A	G	L	G	L	A	A	N	F	R	Q	L	I	T	V	L	G	V	L	A	G	A	G	I	F	N
Secondary structure
SS confidence
Disorder		?	?	?																																																						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	T	K	Y	V	A	Q	Y	H	D	N	P	Q	Q	L	R	R	V	V	G	T	S	S	A	M	V	L	G	F	S	T	L	M	A	L	V	F	V	L	A	A	A	P	I	S	Q	G	L	F	G	N	T	D	Y	Q	G	L	V	R
Secondary structure
SS confidence
Disorder											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	V	A	L	V	Q	M	G	I	A	W	G	N	L	L	L	A	L	M	K	G	F	R	D	A	A	G	N	A	L	S	L	I	V	G	S	L	I	G	V	L	A	Y	Y	V	S	Y	R	L	G	G	Y	E	G	A	L	L	G	L	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	I	P	A	L	V	V	I	P	A	A	I	M	L	I	K	R	G	V	I	P	L	S	Y	L	K	P	S	W	D	N	G	L	A	G	Q	L	S	K	F	T	L	M	A	L	I	T	S	V	T	L	P	V	A	Y	I	M	M	R	K
Secondary structure
SS confidence
Disorder																		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	L	A	A	Q	Y	S	W	D	E	V	G	I	W	Q	G	V	S	S	I	S	D	A	Y	L	Q	F	I	T	A	S	F	S	V	Y	L	L	P	T	L	S	R	L	T	E	K	R	D	I	T	R	E	V	V	K	S	L	K	F	V
Secondary structure
SS confidence
Disorder																																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	P	A	V	A	A	A	S	F	T	V	W	L	L	R	D	F	A	I	W	L	L	L	S	N	K	F	T	A	M	R	D	L	F	A	W	Q	L	V	G	D	V	L	K	V	G	A	Y	V	F	G	Y	L	V	I	A	K	A	S	L
Secondary structure
SS confidence
Disorder																																																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.
Sequence		R	F	Y	I	L	A	E	V	S	Q	F	T	L	L	M	V	F	A	H	W	L	I	P	A	H	G	A	L	G	A	A	Q	A	Y	M	A	T	Y	I	V	Y	F	S	L	C	C	G	V	F	L	L	W	R	R	R	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 3mku chain A Region: 2 - 416 Aligned: 412 Modelled: 412 Confidence: 100.0% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:multi antimicrobial extrusion protein (na(+)/drug PDBTitle: structure of a cation-bound multidrug and toxin compound extrusion2 (mate) transporter Phyre2 PDB 2yvx chain D Region: 1 - 170 Aligned: 170 Modelled: 170 Confidence: 15.3% Identity: 16% PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte Phyre2 PDB 3lrc chain C Region: 287 - 415 Aligned: 129 Modelled: 129 Confidence: 11.0% Identity: 12% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2iub chain A domain 2 Region: 359 - 415 Aligned: 49 Modelled: 57 Confidence: 6.0% Identity: 8% Fold: Transmembrane helix hairpin Superfamily: Magnesium transport protein CorA, transmembrane region Family: Magnesium transport protein CorA, transmembrane region Phyre2 1 c3mkuA_ 2 c2yvxD_ 3 c3lrcC_ 4 d2iuba2

Detailed template information

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

1 c3mkuA_ 100.0 11 PDB header:transport protein Chain: A: PDB Molecule:multi antimicrobial extrusion protein (na(+)/drug PDBTitle: structure of a cation-bound multidrug and toxin compound extrusion2 (mate) transporter 2 c2yvxD_ 15.3 16 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 3 c3lrcC_ 11.0 12 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 4 d2iuba2 6.0 8 Fold:Transmembrane helix hairpin Superfamily:Magnesium transport protein CorA, transmembrane region Family:Magnesium transport protein CorA, transmembrane region

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