Phyre 2 Results for P28249

Email	l.a.kelley@imperial.ac.uk
Description	P28249
Date	Thu Jan 5 11:44:34 GMT 2012
Unique Job ID	2dd95a9402b803cf

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c2qtsA_

Top template information

PDB header:membrane protein
Chain: A: PDB Molecule:acid-sensing ion channel;
PDBTitle: structure of an acid-sensing ion channel 1 at 1.9 a resolution and low2 ph

Confidence and coverage

Confidence:

16.7%

Coverage:

25 residues ( 4% of your sequence) have been modelled with 16.7% 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 R R F L T T L M I L L V V L V A G L S A L V L L V N P N D F R D Y M V K Q V A A R S G Y Q L Q L D G P L R W H V W P Q

Secondary structure

SS confidence

Disorder ? ? ? ?

Disorder confidence

. . . . . . . . . 70 . . . . . . . . . 80 . . . . . . . . . 90 . . . . . . . . . 100 . . . . . . . . . 110 . . . . . . . . . 120

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

Secondary structure

SS confidence

Disorder
?
?
? ? ? ? ?

Disorder confidence

. . . . . . . . . 130 . . . . . . . . . 140 . . . . . . . . . 150 . . . . . . . . . 160 . . . . . . . . . 170 . . . . . . . . . 180

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 190 . . . . . . . . . 200 . . . . . . . . . 210 . . . . . . . . . 220 . . . . . . . . . 230 . . . . . . . . . 240

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 250 . . . . . . . . . 260 . . . . . . . . . 270 . . . . . . . . . 280 . . . . . . . . . 290 . . . . . . . . . 300

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

Secondary structure

SS confidence

Disorder
?
?
? ? ?

Disorder confidence

. . . . . . . . . 310 . . . . . . . . . 320 . . . . . . . . . 330 . . . . . . . . . 340 . . . . . . . . . 350 . . . . . . . . . 360

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 370 . . . . . . . . . 380 . . . . . . . . . 390 . . . . . . . . . 400 . . . . . . . . . 410 . . . . . . . . . 420

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

Secondary structure

SS confidence

Disorder
?
?
?
?
?

Disorder confidence

. . . . . . . . . 430 . . . . . . . . . 440 . . . . . . . . . 450 . . . . . . . . . 460 . . . . . . . . . 470 . . . . . . . . . 480

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 490 . . . . . . . . . 500 . . . . . . . . . 510 . . . . . . . . . 520 . . . . . . . . . 530 . . . . . . . . . 540

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 550 . . . . . . . . . 560 . . . . . . . . . 570 . . . . . . . . . 580 . . . . . . . . . 590 . . . . . . . . . 600

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 610 . . . . . . .

Sequence N K D S R N G K D V K K L L E K M

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 2qts chain A

Region: 1 - 25
Aligned: 25
Modelled: 25
Confidence: 16.7%
Identity: 12%
PDB header:membrane protein
Chain: A: PDB Molecule:acid-sensing ion channel;
PDBTitle: structure of an acid-sensing ion channel 1 at 1.9 a resolution and low2 ph

Phyre2

PDB 3o0r chain C

Region: 1 - 31
Aligned: 31
Modelled: 31
Confidence: 8.2%
Identity: 10%
PDB header:immune system/oxidoreductase
Chain: C: PDB Molecule:nitric oxide reductase subunit c;
PDBTitle: crystal structure of nitric oxide reductase from pseudomonas2 aeruginosa in complex with antibody fragment

Phyre2

PDB 1wx4 chain B

Region: 103 - 121
Aligned: 19
Modelled: 19
Confidence: 7.8%
Identity: 11%
PDB header:oxidoreductase/metal transport
Chain: B: PDB Molecule:melc;
PDBTitle: crystal structure of the oxy-form of the copper-bound streptomyces2 castaneoglobisporus tyrosinase complexed with a caddie protein3 prepared by the addition of dithiothreitol

Phyre2

c2qtsA_

c3o0rC_

c1wx4B_

Detailed template information

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

c2qtsA_

16.7

PDB header:membrane protein
Chain: A: PDB Molecule:acid-sensing ion channel;
PDBTitle: structure of an acid-sensing ion channel 1 at 1.9 a resolution and low2 ph

c3o0rC_

8.2

PDB header:immune system/oxidoreductase
Chain: C: PDB Molecule:nitric oxide reductase subunit c;
PDBTitle: crystal structure of nitric oxide reductase from pseudomonas2 aeruginosa in complex with antibody fragment

c1wx4B_

7.8

PDB header:oxidoreductase/metal transport
Chain: B: PDB Molecule:melc;
PDBTitle: crystal structure of the oxy-form of the copper-bound streptomyces2 castaneoglobisporus tyrosinase complexed with a caddie protein3 prepared by the addition of dithiothreitol

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

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]

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

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

	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence	L	S	I	L	S	G	R	M	S	L	T	A	Q	G	A	S	Q	P	L	V	R	A	D	N	M	R	L	D	V	A	L	L	P	L	L	S	H	Q	L	S	V	K	Q	V	M	L	K	G	A	V	I	Q	L	T	P	Q	T	E	A	V
Secondary structure
SS confidence
Disorder																																		?		?																				?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence	R	S	E	D	A	P	V	A	P	R	D	N	T	L	P	D	L	S	D	D	R	G	W	S	F	D	I	S	S	L	K	V	A	D	S	V	L	V	F	Q	H	E	D	D	E	Q	V	T	I	R	N	I	R	L	Q	M	E	Q	D	P
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?															?	?	?														?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence	Q	H	R	G	S	F	E	F	S	G	R	V	N	R	D	Q	R	D	L	T	I	S	L	N	G	T	V	D	A	S	D	Y	P	H	D	L	T	A	A	I	E	Q	I	N	W	Q	L	Q	G	A	D	L	P	K	Q	G	I	Q	G	Q
Secondary structure
SS confidence
Disorder	?	?	?								?	?	?	?	?	?	?	?								?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?					?	?	?	?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence	G	S	F	Q	A	Q	W	Q	E	S	H	K	R	L	S	F	N	Q	I	S	L	T	A	N	D	S	T	L	S	G	Q	A	Q	V	T	L	T	E	K	P	E	W	Q	L	R	L	Q	F	P	Q	L	N	L	D	N	L	I	P	L	N
Secondary structure
SS confidence
Disorder											?																												?																			?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence	E	T	A	N	G	E	N	G	A	A	Q	Q	G	Q	S	Q	S	T	L	P	R	P	V	I	S	S	R	I	D	E	P	A	Y	Q	G	L	Q	G	F	T	A	D	I	L	L	Q	A	S	N	V	R	W	R	G	M	N	F	T	D	V
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence	A	T	Q	M	T	N	K	S	G	L	L	E	I	T	Q	L	Q	G	K	L	N	G	G	Q	V	S	L	P	G	T	L	D	A	T	S	I	N	P	R	I	N	F	Q	P	R	L	E	N	V	E	I	G	T	I	L	K	A	F	N	Y
Secondary structure
SS confidence
Disorder																																?			?		?																					?		?
Disorder confidence

	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence	P	I	S	L	T	G	K	M	S	L	A	G	D	F	S	G	A	D	I	D	A	D	A	F	R	H	N	W	Q	G	Q	A	H	V	E	M	T	D	T	R	M	E	G	M	N	F	Q	Q	M	I	Q	Q	A	V	E	R	N	G	G	D
Secondary structure
SS confidence
Disorder	?	?	?																	?						?																												?	?	?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence	V	K	A	A	E	N	F	D	N	V	T	R	L	D	R	F	T	T	D	L	T	L	K	D	G	V	V	T	L	N	D	M	Q	G	Q	S	P	V	L	A	L	T	G	E	G	M	L	N	L	A	D	Q	T	C	D	T	Q	F	D	I
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?	?	?	?																						?				?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600
Sequence	R	V	V	G	G	W	N	G	E	S	K	L	I	D	F	L	K	E	T	P	V	P	L	R	V	Y	G	N	W	Q	Q	L	N	Y	S	L	Q	V	D	Q	L	L	R	K	H	L	Q	D	E	A	K	R	R	L	N	D	W	A	E	R
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																																								?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.
Sequence	N	K	D	S	R	N	G	K	D	V	K	K	L	L	E	K	M
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?								?	?	?
Disorder confidence