Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	K	H	A	S	Q	P	R	A	I	Y	Y	V	V	A	L	Q	I	W	E	Y	F	S	F	Y	G	M	R	A	L	L	I	L	Y	L	T	N	Q	L	K	Y	N	D	T	H	A	Y	E	L	F	S	A	Y	C	S	L	V	Y	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	P	I	L	G	G	F	L	A	D	K	V	L	G	N	R	M	A	V	M	L	G	A	L	L	M	A	I	G	H	V	V	L	G	A	S	E	I	H	P	S	F	L	Y	L	S	L	A	I	I	V	C	G	Y	G	L	F	K	S	N
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	S	C	L	L	G	E	L	Y	E	P	T	D	P	R	R	D	G	G	F	S	L	M	Y	A	A	G	N	V	G	S	I	I	A	P	I	A	C	G	Y	A	Q	E	E	Y	S	W	A	M	G	F	G	L	A	A	V	G	M	I	A
Secondary structure
SS confidence
Disorder											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	L	V	I	F	L	C	G	N	R	H	F	T	H	T	R	G	V	N	K	K	V	L	R	A	T	N	F	L	L	P	N	W	G	W	L	L	V	L	L	V	A	T	P	A	L	I	T	I	L	F	W	K	E	W	S	V	Y	A	L
Secondary structure
SS confidence
Disorder											?	?		?	?		?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	V	A	T	I	I	G	L	G	V	L	A	K	I	Y	R	K	A	E	N	Q	K	Q	R	K	E	L	G	L	I	V	T	L	T	F	F	S	M	L	F	W	A	F	A	Q	Q	G	G	S	S	I	S	L	Y	I	D	R	F	V	N
Secondary structure
SS confidence
Disorder																		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		R	D	M	F	G	Y	T	V	P	T	A	M	F	Q	S	I	N	A	F	A	V	M	L	C	G	V	F	L	A	W	V	V	K	E	S	V	A	G	N	R	T	V	R	I	W	G	K	F	A	L	G	L	G	L	M	S	A	G	F	C
Secondary structure
SS confidence
Disorder																																						?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		I	L	T	L	S	A	R	W	S	A	M	Y	G	H	S	S	L	P	L	M	V	L	G	L	A	V	M	G	F	A	E	L	F	I	D	P	V	A	M	S	Q	I	T	R	I	E	I	P	G	V	T	G	V	L	T	G	I	Y	M	L
Secondary structure
SS confidence
Disorder								?	?	?	?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		L	S	G	A	I	A	N	Y	L	A	G	V	I	A	D	Q	T	S	Q	A	S	F	D	A	S	G	A	I	N	Y	S	I	N	A	Y	I	E	V	F	D	Q	I	T	W	G	A	L	A	C	V	G	L	V	L	M	I	W	L	Y	Q
Secondary structure
SS confidence
Disorder																				?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.
Sequence		A	L	K	F	R	N	R	A	L	A	L	E	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 2xut chain C Region: 10 - 472 Aligned: 448 Modelled: 463 Confidence: 100.0% Identity: 18% 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: 2 - 492 Aligned: 412 Modelled: 427 Confidence: 100.0% Identity: 14% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1pv7 chain A Region: 9 - 492 Aligned: 409 Modelled: 411 Confidence: 100.0% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 3o7p chain A Region: 12 - 480 Aligned: 405 Modelled: 408 Confidence: 100.0% Identity: 14% 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: 11 - 478 Aligned: 372 Modelled: 379 Confidence: 99.9% Identity: 15% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 1ikp chain A domain 3 Region: 3 - 46 Aligned: 37 Modelled: 38 Confidence: 12.4% Identity: 30% Fold: Toxins' membrane translocation domains Superfamily: Exotoxin A, middle domain Family: Exotoxin A, middle domain Phyre2 PDB 1fft chain B domain 2 Region: 439 - 488 Aligned: 50 Modelled: 50 Confidence: 10.8% Identity: 14% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 3hzq chain A Region: 412 - 488 Aligned: 77 Modelled: 77 Confidence: 7.5% Identity: 9% 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 1j4n chain A Region: 160 - 203 Aligned: 44 Modelled: 44 Confidence: 7.1% Identity: 7% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 2knc chain A Region: 458 - 493 Aligned: 36 Modelled: 36 Confidence: 6.8% Identity: 25% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3pro chain C domain 1 Region: 30 - 74 Aligned: 45 Modelled: 45 Confidence: 6.8% Identity: 9% Fold: Alpha-lytic protease prodomain-like Superfamily: Alpha-lytic protease prodomain Family: Alpha-lytic protease prodomain Phyre2 PDB 2g9p chain A Region: 64 - 78 Aligned: 14 Modelled: 15 Confidence: 6.0% Identity: 36% 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 1ikq chain A Region: 3 - 47 Aligned: 38 Modelled: 45 Confidence: 6.0% Identity: 29% PDB header:transferase Chain: A: PDB Molecule:exotoxin a; PDBTitle: pseudomonas aeruginosa exotoxin a, wild type Phyre2 PDB 1o82 chain A Region: 36 - 69 Aligned: 34 Modelled: 34 Confidence: 5.9% Identity: 15% Fold: Saposin-like Superfamily: Bacteriocin AS-48 Family: Bacteriocin AS-48 Phyre2 PDB 2rdd chain B Region: 461 - 493 Aligned: 33 Modelled: 33 Confidence: 5.6% Identity: 15% 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 2ox6 chain A domain 1 Region: 27 - 51 Aligned: 25 Modelled: 25 Confidence: 5.5% Identity: 24% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: YdiL-like Phyre2 PDB 2hoe chain A domain 1 Region: 36 - 54 Aligned: 19 Modelled: 19 Confidence: 5.1% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: ROK associated domain Phyre2 PDB 2auw chain A domain 1 Region: 2 - 16 Aligned: 15 Modelled: 15 Confidence: 5.1% Identity: 27% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: NE0471 C-terminal domain-like Phyre2 1 c2xutC_ 2 d1pw4a_ 3 d1pv7a_ 4 c3o7pA_ 5 c2gfpA_ 6 d1ikpa3 7 d1fftb2 8 c3hzqA_ 9 d1j4na_ 10 c2kncA_ 11 d3proc1 12 c2g9pA_ 13 c1ikqA_ 14 d1o82a_ 15 c2rddB_ 16 d2ox6a1 17 d2hoea1 18 d2auwa1

Detailed template information

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

1 c2xutC_ 100.0 18 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. 2 d1pw4a_ 100.0 14 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 d1pv7a_ 100.0 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 4 c3o7pA_ 100.0 14 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 5 c2gfpA_ 99.9 15 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 6 d1ikpa3 12.4 30 Fold:Toxins' membrane translocation domains Superfamily:Exotoxin A, middle domain Family:Exotoxin A, middle domain 7 d1fftb2 10.8 14 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 8 c3hzqA_ 7.5 9 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: structure of a tetrameric mscl in an expanded intermediate2 state 9 d1j4na_ 7.1 7 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 10 c2kncA_ 6.8 25 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 11 d3proc1 6.8 9 Fold:Alpha-lytic protease prodomain-like Superfamily:Alpha-lytic protease prodomain Family:Alpha-lytic protease prodomain 12 c2g9pA_ 6.0 36 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 13 c1ikqA_ 6.0 29 PDB header:transferase Chain: A: PDB Molecule:exotoxin a; PDBTitle: pseudomonas aeruginosa exotoxin a, wild type 14 d1o82a_ 5.9 15 Fold:Saposin-like Superfamily:Bacteriocin AS-48 Family:Bacteriocin AS-48 15 c2rddB_ 5.6 15 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. 16 d2ox6a1 5.5 24 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:YdiL-like 17 d2hoea1 5.1 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ROK associated domain 18 d2auwa1 5.1 27 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like

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

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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