Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	H	S	S	A	P	E	R	A	T	G	A	V	I	T	D	W	R	P	E	D	P	A	F	W	Q	Q	R	G	Q	R	I	A	S	R	N	L	W	I	S	V	P	C	L	L	L	A	F	C	V	W	M	L	F	S	A	V	A	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?		?								?				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	L	P	K	V	G	F	N	F	T	T	D	Q	L	F	M	L	T	A	L	P	S	V	S	G	A	L	L	R	V	P	Y	S	F	M	V	P	I	F	G	G	R	R	W	T	A	F	S	T	G	I	L	I	I	P	C	V	W	L	G
Secondary structure
SS confidence
Disorder					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	A	V	Q	D	T	S	T	P	Y	S	V	F	I	I	I	S	L	L	C	G	F	A	G	A	N	F	A	S	S	M	A	N	I	S	F	F	F	P	K	Q	K	Q	G	G	A	L	G	L	N	G	G	L	G	N	M	G	V	S	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		M	Q	L	V	A	P	L	V	V	S	L	S	I	F	A	V	F	G	S	Q	G	V	K	Q	P	D	G	T	E	L	Y	L	A	N	A	S	W	I	W	V	P	F	L	A	I	F	T	I	A	A	W	F	G	M	N	D	L	A	T	S
Secondary structure
SS confidence
Disorder																																																			?		?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		K	A	S	I	K	E	Q	L	P	V	L	K	R	G	H	L	W	I	M	S	L	L	Y	L	A	T	F	G	S	F	I	G	F	S	A	G	F	A	M	L	S	K	T	Q	F	P	D	V	Q	I	L	Q	Y	A	F	F	G	P	F	I
Secondary structure
SS confidence
Disorder		?	?	?																																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	A	L	A	R	S	A	G	G	A	L	S	D	R	L	G	G	T	R	V	T	L	V	N	F	I	L	M	A	I	F	S	G	L	L	F	L	T	L	P	T	D	G	Q	G	G	S	F	M	A	F	F	A	V	F	L	A	L	F	L
Secondary structure
SS confidence
Disorder																																								?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		T	A	G	L	G	S	G	S	T	F	Q	M	I	S	V	I	F	R	K	L	T	M	D	R	V	K	A	E	G	G	S	D	E	R	A	M	R	E	A	A	T	D	T	A	A	A	L	G	F	I	S	A	I	G	A	I	G	G	F	F
Secondary structure
SS confidence
Disorder																				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.
Sequence		I	P	K	A	F	G	S	S	L	A	L	T	G	S	P	V	G	A	M	K	V	F	L	I	F	Y	I	A	C	V	V	I	T	W	A	V	Y	G	R	H	S	K	K
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 1pw4 chain A Region: 6 - 463 Aligned: 420 Modelled: 435 Confidence: 100.0% Identity: 14% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 36 - 461 Aligned: 390 Modelled: 397 Confidence: 100.0% Identity: 10% 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 1pv7 chain A Region: 31 - 462 Aligned: 403 Modelled: 404 Confidence: 100.0% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2gfp chain A Region: 38 - 448 Aligned: 366 Modelled: 372 Confidence: 100.0% Identity: 8% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 2xut chain C Region: 39 - 452 Aligned: 410 Modelled: 414 Confidence: 100.0% Identity: 10% 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 3b9y chain A Region: 23 - 262 Aligned: 229 Modelled: 240 Confidence: 70.0% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 3hd6 chain A Region: 12 - 246 Aligned: 219 Modelled: 227 Confidence: 52.1% Identity: 13% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2e8p chain A Region: 2 - 28 Aligned: 27 Modelled: 27 Confidence: 18.5% Identity: 33% PDB header:signaling protein Chain: A: PDB Molecule:elf3 protein; PDBTitle: solution structure of the n-terminal sam-domain of e74-like2 factor 3 Phyre2 PDB 2rdd chain B Region: 440 - 463 Aligned: 24 Modelled: 24 Confidence: 10.5% Identity: 13% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 2l92 chain A Region: 19 - 35 Aligned: 17 Modelled: 17 Confidence: 9.4% Identity: 29% PDB header:dna binding protein Chain: A: PDB Molecule:histone family protein nucleoid-structuring protein h-ns; PDBTitle: solution structure of the c-terminal domain of h-ns like protein bv3f Phyre2 PDB 2g9p chain A Region: 91 - 104 Aligned: 14 Modelled: 14 Confidence: 7.9% Identity: 14% PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom Phyre2 PDB 2bbj chain B Region: 394 - 460 Aligned: 67 Modelled: 67 Confidence: 7.0% Identity: 12% PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter Phyre2 PDB 3jyv chain T Region: 20 - 40 Aligned: 21 Modelled: 21 Confidence: 5.9% Identity: 19% PDB header:ribosome Chain: T: PDB Molecule:s19e protein; PDBTitle: structure of the 40s rrna and proteins and p/e trna for eukaryotic2 ribosome based on cryo-em map of thermomyces lanuginosus ribosome at3 8.9a resolution Phyre2 PDB 3lge chain G Region: 13 - 31 Aligned: 19 Modelled: 18 Confidence: 5.8% Identity: 16% PDB header:lyase/protein binding Chain: G: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex Phyre2 PDB 3lge chain F Region: 13 - 31 Aligned: 19 Modelled: 18 Confidence: 5.8% Identity: 16% PDB header:lyase/protein binding Chain: F: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex Phyre2 PDB 2inp chain D Region: 92 - 103 Aligned: 12 Modelled: 12 Confidence: 5.5% Identity: 25% PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex Phyre2 PDB 2imh chain A domain 1 Region: 7 - 23 Aligned: 17 Modelled: 17 Confidence: 5.4% Identity: 29% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: SPO2555-like Phyre2 PDB 3hft chain A Region: 13 - 29 Aligned: 17 Modelled: 17 Confidence: 5.2% Identity: 35% PDB header:hydrolase Chain: A: PDB Molecule:wbms, polysaccharide deacetylase involved in o-antigen PDBTitle: crystal structure of a putative polysaccharide deacetylase involved in2 o-antigen biosynthesis (wbms, bb0128) from bordetella bronchiseptica3 at 1.90 a resolution Phyre2 1 d1pw4a_ 2 c3o7pA_ 3 d1pv7a_ 4 c2gfpA_ 5 c2xutC_ 6 c3b9yA_ 7 c3hd6A_ 8 c2e8pA_ 9 c2rddB_ 10 c2l92A_ 11 c2g9pA_ 12 c2bbjB_ 13 c3jyvT_ 14 c3lgeG_ 15 c3lgeF_ 16 c2inpD_ 17 d2imha1 18 c3hftA_

Detailed template information

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

1 d1pw4a_ 100.0 14 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 c3o7pA_ 100.0 10 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 3 d1pv7a_ 100.0 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 4 c2gfpA_ 100.0 8 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 5 c2xutC_ 100.0 10 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. 6 c3b9yA_ 70.0 10 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 7 c3hd6A_ 52.1 13 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 8 c2e8pA_ 18.5 33 PDB header:signaling protein Chain: A: PDB Molecule:elf3 protein; PDBTitle: solution structure of the n-terminal sam-domain of e74-like2 factor 3 9 c2rddB_ 10.5 13 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 10 c2l92A_ 9.4 29 PDB header:dna binding protein Chain: A: PDB Molecule:histone family protein nucleoid-structuring protein h-ns; PDBTitle: solution structure of the c-terminal domain of h-ns like protein bv3f 11 c2g9pA_ 7.9 14 PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom 12 c2bbjB_ 7.0 12 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 13 c3jyvT_ 5.9 19 PDB header:ribosome Chain: T: PDB Molecule:s19e protein; PDBTitle: structure of the 40s rrna and proteins and p/e trna for eukaryotic2 ribosome based on cryo-em map of thermomyces lanuginosus ribosome at3 8.9a resolution 14 c3lgeG_ 5.8 16 PDB header:lyase/protein binding Chain: G: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex 15 c3lgeF_ 5.8 16 PDB header:lyase/protein binding Chain: F: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex 16 c2inpD_ 5.5 25 PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex 17 d2imha1 5.4 29 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:SPO2555-like 18 c3hftA_ 5.2 35 PDB header:hydrolase Chain: A: PDB Molecule:wbms, polysaccharide deacetylase involved in o-antigen PDBTitle: crystal structure of a putative polysaccharide deacetylase involved in2 o-antigen biosynthesis (wbms, bb0128) from bordetella bronchiseptica3 at 1.90 a resolution

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]
© Structural Bioinformatics Group 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