Phyre 2 Results for P77304

Email	l.a.kelley@imperial.ac.uk
Description	P77304
Date	Thu Jan 5 12:27:31 GMT 2012
Unique Job ID	ba5a4acd6483b31c

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c2xutC_

Top template information

PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.

Confidence and coverage

Confidence:

100.0%

Coverage:

90%

448 residues ( 90% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.

3D viewing

Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ?
? ?

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ? ?
?
?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
?
?
?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ? ? ? ? ? ? ? ?

Disorder confidence

. . . . . . . . . 490 . . . . . . . . . 500

Sequence K L H R M T Q D D A A D K A A K A A V 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 2xut chain C

Region: 22 - 476
Aligned: 448
Modelled: 455
Confidence: 100.0%
Identity: 21%
PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.

Phyre2

PDB 1pw4 chain A

Region: 1 - 492
Aligned: 423
Modelled: 426
Confidence: 100.0%
Identity: 11%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2

PDB 1pv7 chain A

Region: 21 - 494
Aligned: 405
Modelled: 416
Confidence: 100.0%
Identity: 12%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: LacY-like proton/sugar symporter

Phyre2

PDB 3o7p chain A

Region: 24 - 482
Aligned: 406
Modelled: 411
Confidence: 100.0%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:l-fucose-proton symporter;
PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)

Phyre2

PDB 2gfp chain A

Region: 23 - 473
Aligned: 369
Modelled: 396
Confidence: 100.0%
Identity: 12%
PDB header:membrane protein
Chain: A: PDB Molecule:multidrug resistance protein d;
PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli

Phyre2

PDB 3qnq chain D

Region: 461 - 496
Aligned: 36
Modelled: 36
Confidence: 70.4%
Identity: 17%
PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system

Phyre2

PDB 2oar chain A domain 1

Region: 418 - 499
Aligned: 82
Modelled: 82
Confidence: 51.4%
Identity: 7%
Fold: Gated mechanosensitive channel
Superfamily: Gated mechanosensitive channel
Family: Gated mechanosensitive channel

Phyre2

PDB 2jp3 chain A

Region: 452 - 498
Aligned: 46
Modelled: 47
Confidence: 16.8%
Identity: 13%
PDB header:transcription
Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4;
PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles

Phyre2

PDB 2oar chain A

Region: 418 - 499
Aligned: 82
Modelled: 82
Confidence: 16.2%
Identity: 7%
PDB header:membrane protein
Chain: A: PDB Molecule:large-conductance mechanosensitive channel;
PDBTitle: mechanosensitive channel of large conductance (mscl)

Phyre2

PDB 2knc chain A

Region: 462 - 496
Aligned: 35
Modelled: 35
Confidence: 12.6%
Identity: 17%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex

Phyre2

PDB 3hzq chain A

Region: 418 - 489
Aligned: 72
Modelled: 72
Confidence: 11.4%
Identity: 8%
PDB header:membrane protein
Chain: A: PDB Molecule:large-conductance mechanosensitive channel;
PDBTitle: structure of a tetrameric mscl in an expanded intermediate2 state

Phyre2

PDB 2jln chain A

Region: 460 - 498
Aligned: 39
Modelled: 39
Confidence: 10.1%
Identity: 8%
PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter

Phyre2

PDB 2b2h chain A

Region: 423 - 497
Aligned: 75
Modelled: 75
Confidence: 8.8%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

Phyre2

PDB 3pro chain C domain 1

Region: 42 - 86
Aligned: 45
Modelled: 45
Confidence: 7.0%
Identity: 13%
Fold: Alpha-lytic protease prodomain-like
Superfamily: Alpha-lytic protease prodomain
Family: Alpha-lytic protease prodomain

Phyre2

PDB 1jo5 chain A

Region: 455 - 482
Aligned: 28
Modelled: 28
Confidence: 6.5%
Identity: 14%
Fold: Light-harvesting complex subunits
Superfamily: Light-harvesting complex subunits
Family: Light-harvesting complex subunits

Phyre2

Detailed template information

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

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

	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence	T	L	F	S	S	F	S	A	L	V	Y	G	L	V	A	I	G	G	W	L	G	D	K	V	L	G	T	K	R	V	I	M	L	G	A	I	V	L	A	I	G	Y	A	L	V	A	W	S	G	H	D	A	G	I	V	Y	M	G	M	A
Secondary structure
SS confidence
Disorder
Disorder confidence

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

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

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

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

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

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

	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500
Sequence	K	L	H	R	M	T	Q	D	D	A	A	D	K	A	A	K	A	A	V	A
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence