Phyre 2 Results for C6Y4C8

Email	l.a.kelley@imperial.ac.uk
Description	C6Y4C8
Date	Sun Jul 8 11:45:10 BST 2012
Unique Job ID	e2dcdd7fe94cf7f9

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c2w8aC_

Top template information

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

Confidence and coverage

Confidence:

19.2%

Coverage:

74%

65 residues ( 74% of your sequence) have been modelled with 19.2% confidence by the single highest scoring template.

You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.

Please note: You must be registered and logged in to use Phyrealarm.

3D viewing

Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

1 . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60

Sequence M E R K S Q V S D T N N N S I P T N V L L K F V G F S V A L F T L P L I T Y F W T L K T L F K G Y Q T L Y A G L S A A V

Secondary structure

SS confidence

Disorder ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?

Disorder confidence

. . . . . . . . . 70 . . . . . . . . . 80 . . . . . . . .

Sequence M V N I I L A L Y I V A A F R E D S G T P K K D I K R E

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 2w8a chain C

Region: 24 - 88
Aligned: 65
Modelled: 65
Confidence: 19.2%
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 2l6w chain B

Region: 52 - 79
Aligned: 28
Modelled: 28
Confidence: 6.0%
Identity: 14%
PDB header:membrane protein
Chain: B: PDB Molecule:beta-type platelet-derived growth factor receptor;
PDBTitle: pdgfr beta-tm

Phyre2

c2w8aC_

c2l6wB_

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

	1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence	M	E	R	K	S	Q	V	S	D	T	N	N	N	S	I	P	T	N	V	L	L	K	F	V	G	F	S	V	A	L	F	T	L	P	L	I	T	Y	F	W	T	L	K	T	L	F	K	G	Y	Q	T	L	Y	A	G	L	S	A	A	V
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.
Sequence	M	V	N	I	I	L	A	L	Y	I	V	A	A	F	R	E	D	S	G	T	P	K	K	D	I	K	R	E
Secondary structure
SS confidence
Disorder																?	?	?	?	?						?	?	?
Disorder confidence