Phyre 2 Results for P03959

Email	l.a.kelley@imperial.ac.uk
Description	P03959
Date	Thu Jan 5 10:58:06 GMT 2012
Unique Job ID	4f8be31d5e6e1b2c

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c3pjzA_

Top template information

PDB header:transport protein
Chain: A: PDB Molecule:potassium uptake protein trkh;
PDBTitle: crystal structure of the potassium transporter trkh from vibrio2 parahaemolyticus

Confidence and coverage

Confidence:

100.0%

Coverage:

79%

442 residues ( 79% 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 A A Q G F L L I A T F L L V L M V L A R P L G S G L A R L I N D I P L P G T T G V E R V L F R A L G V S D R E M N W K

Secondary structure

SS confidence

Disorder ? ? ? ? ?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
?
?
? ? ? ? ?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
?
? ? ? ?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
?
?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ? ? ?
?

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ? ? ? ?
? ? ?

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

. . . . . . . . . 550 . . . . . . .

Sequence L T F I P A L A L G P V A E Y L S

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 3pjz chain A

Region: 1 - 503
Aligned: 442
Modelled: 471
Confidence: 100.0%
Identity: 14%
PDB header:transport protein
Chain: A: PDB Molecule:potassium uptake protein trkh;
PDBTitle: crystal structure of the potassium transporter trkh from vibrio2 parahaemolyticus

Phyre2

PDB 2qks chain A

Region: 413 - 513
Aligned: 98
Modelled: 101
Confidence: 92.4%
Identity: 16%
PDB header:metal transport
Chain: A: PDB Molecule:kir3.1-prokaryotic kir channel chimera;
PDBTitle: crystal structure of a kir3.1-prokaryotic kir channel chimera

Phyre2

PDB 1xl4 chain A domain 2

Region: 413 - 511
Aligned: 96
Modelled: 99
Confidence: 91.3%
Identity: 15%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 3jyc chain A

Region: 268 - 369
Aligned: 100
Modelled: 102
Confidence: 89.6%
Identity: 13%
PDB header:metal transport
Chain: A: PDB Molecule:inward-rectifier k+ channel kir2.2;
PDBTitle: crystal structure of the eukaryotic strong inward-rectifier2 k+ channel kir2.2 at 3.1 angstrom resolution

Phyre2

PDB 2a9h chain A domain 1

Region: 415 - 513
Aligned: 93
Modelled: 99
Confidence: 89.3%
Identity: 17%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 1xl6 chain B

Region: 413 - 514
Aligned: 99
Modelled: 102
Confidence: 89.0%
Identity: 14%
PDB header:metal transport
Chain: B: PDB Molecule:inward rectifier potassium channel;
PDBTitle: intermediate gating structure 2 of the inwardly rectifying k+ channel2 kirbac3.1

Phyre2

PDB 1p7b chain B

Region: 413 - 512
Aligned: 98
Modelled: 100
Confidence: 89.0%
Identity: 12%
PDB header:metal transport
Chain: B: PDB Molecule:integral membrane channel and cytosolic domains;
PDBTitle: crystal structure of an inward rectifier potassium channel

Phyre2

PDB 3ifx chain B

Region: 416 - 512
Aligned: 92
Modelled: 97
Confidence: 87.4%
Identity: 15%
PDB header:membrane protein
Chain: B: PDB Molecule:voltage-gated potassium channel;
PDBTitle: crystal structure of the spin-labeled kcsa mutant v48r1

Phyre2

PDB 1f6g chain A

Region: 264 - 422
Aligned: 132
Modelled: 142
Confidence: 85.3%
Identity: 18%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 1p7b chain A domain 2

Region: 413 - 509
Aligned: 95
Modelled: 97
Confidence: 78.1%
Identity: 13%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 3e8g chain B

Region: 415 - 511
Aligned: 86
Modelled: 88
Confidence: 76.1%
Identity: 16%
PDB header:membrane protein
Chain: B: PDB Molecule:potassium channel protein;
PDBTitle: crystal structure of the the open nak channel-na+/ca2+ complex

Phyre2

PDB 2kb1 chain A

Region: 423 - 511
Aligned: 86
Modelled: 89
Confidence: 74.6%
Identity: 10%
PDB header:membrane protein
Chain: A: PDB Molecule:wsk3;
PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa

Phyre2

PDB 2h8p chain C domain 1

Region: 276 - 346
Aligned: 54
Modelled: 54
Confidence: 72.5%
Identity: 17%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 1lnq chain C

Region: 333 - 373
Aligned: 39
Modelled: 41
Confidence: 69.4%
Identity: 28%
PDB header:metal transport
Chain: C: PDB Molecule:potassium channel related protein;
PDBTitle: crystal structure of mthk at 3.3 a

Phyre2

PDB 1r3j chain C

Region: 415 - 510
Aligned: 91
Modelled: 96
Confidence: 66.0%
Identity: 15%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 2r9r chain H

Region: 407 - 506
Aligned: 97
Modelled: 100
Confidence: 59.8%
Identity: 7%
PDB header:membrane protein, transport protein
Chain: H: PDB Molecule:paddle chimera voltage gated potassium channel kv1.2-kv2.1;
PDBTitle: shaker family voltage dependent potassium channel (kv1.2-kv2.1 paddle2 chimera channel) in association with beta subunit

Phyre2

PDB 3beh chain A

Region: 407 - 506
Aligned: 97
Modelled: 100
Confidence: 58.3%
Identity: 12%
PDB header:membrane protein
Chain: A: PDB Molecule:mll3241 protein;
PDBTitle: structure of a bacterial cyclic nucleotide regulated ion channel

Phyre2

PDB 1lnq chain A domain 2

Region: 333 - 369
Aligned: 35
Modelled: 37
Confidence: 45.5%
Identity: 29%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2

PDB 1orq chain C

Region: 412 - 510
Aligned: 96
Modelled: 99
Confidence: 16.0%
Identity: 10%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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

	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence	Q	Y	L	C	A	I	L	G	L	N	M	L	G	L	A	V	L	F	F	M	L	L	G	Q	H	Y	L	P	L	N	P	Q	Q	L	P	G	L	S	W	D	L	A	L	N	T	A	V	S	F	V	T	N	T	N	W	Q	S	Y	S	G
Secondary structure
SS confidence
Disorder																												?				?		?	?	?	?	?
Disorder confidence

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

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

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

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

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

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

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

	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.
Sequence	L	T	F	I	P	A	L	A	L	G	P	V	A	E	Y	L	S
Secondary structure
SS confidence
Disorder																?	?
Disorder confidence