Phyre 2 Results for P31433

Email	l.a.kelley@imperial.ac.uk
Description	P31433
Date	Thu Jan 5 11:47:23 GMT 2012
Unique Job ID	841ddba48408f054

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template d1m56d_

Top template information

Fold:Single transmembrane helix
Superfamily:Bacterial aa3 type cytochrome c oxidase subunit IV
Family:Bacterial aa3 type cytochrome c oxidase subunit IV

Confidence and coverage

Confidence:

8.1%

Coverage:

21 residues ( 4% of your sequence) have been modelled with 8.1% 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 K F I G K L L L Y I L I A L L V A I A G L Y F L L Q T R W G A E H I S A W V S E N S D Y H L A F G A M D H R F S A P S

Secondary structure

SS confidence

Disorder ? ? ?

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 550 . . . . . . . . . 560 . . . . . . . . .

Sequence V N A A K Q Q V T Q T M N A G I V S S G E V T S T E P V 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 1m56 chain D

Region: 1 - 21
Aligned: 21
Modelled: 21
Confidence: 8.1%
Identity: 14%
Fold: Single transmembrane helix
Superfamily: Bacterial aa3 type cytochrome c oxidase subunit IV
Family: Bacterial aa3 type cytochrome c oxidase subunit IV

Phyre2

PDB 2lat chain A

Region: 5 - 34
Aligned: 30
Modelled: 30
Confidence: 7.5%
Identity: 13%
PDB header:membrane protein
Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein
PDBTitle: solution structure of a human minimembrane protein ost4

Phyre2

PDB 2hg5 chain D

Region: 3 - 37
Aligned: 35
Modelled: 35
Confidence: 5.5%
Identity: 14%
PDB header:membrane protein
Chain: D: PDB Molecule:kcsa channel;
PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter

Phyre2

d1m56d_

c2latA_

c2hg5D_

Detailed template information

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

d1m56d_

8.1

Fold:Single transmembrane helix
Superfamily:Bacterial aa3 type cytochrome c oxidase subunit IV
Family:Bacterial aa3 type cytochrome c oxidase subunit IV

c2latA_

7.5

PDB header:membrane protein
Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein
PDBTitle: solution structure of a human minimembrane protein ost4

c2hg5D_

5.5

PDB header:membrane protein
Chain: D: PDB Molecule:kcsa channel;
PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter

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	K	F	I	G	K	L	L	L	Y	I	L	I	A	L	L	V	A	I	A	G	L	Y	F	L	L	Q	T	R	W	G	A	E	H	I	S	A	W	V	S	E	N	S	D	Y	H	L	A	F	G	A	M	D	H	R	F	S	A	P	S
Secondary structure
SS confidence
Disorder	?	?	?
Disorder confidence

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

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

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

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

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

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

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

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

	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.
Sequence	V	N	A	A	K	Q	Q	V	T	Q	T	M	N	A	G	I	V	S	S	G	E	V	T	S	T	E	P	V	R
Secondary structure
SS confidence
Disorder			?	?	?				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence