Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	H	Q	R	K	L	F	Q	Q	R	G	Y	S	E	D	L	L	P	K	T	Q	S	Q	R	T	W	K	T	F	N	Y	F	T	L	W	M	G	S	V	H	N	V	P	N	Y	V	M	V	G	G	F	F	I	L	G	L	S	T	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	I	M	L	A	I	I	L	S	A	F	F	I	A	A	V	M	V	L	N	G	A	A	G	S	K	Y	G	V	P	F	A	M	I	L	R	A	S	Y	G	V	R	G	A	L	F	P	G	L	L	R	G	G	I	A	A	I	M	W	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	L	Q	C	Y	A	G	S	L	A	C	L	I	L	I	G	K	I	W	P	G	F	L	T	L	G	G	D	F	T	L	L	G	L	S	L	P	G	L	I	T	F	L	I	F	W	L	V	N	V	G	I	G	F	G	G	G	K	V	L
Secondary structure
SS confidence
Disorder																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		N	K	F	T	A	I	L	N	P	C	I	Y	I	V	F	G	G	M	A	I	W	A	I	S	L	V	G	I	G	P	I	F	D	Y	I	P	S	G	I	Q	K	A	E	N	G	G	F	L	F	L	V	V	I	N	A	V	V	A	V	W
Secondary structure
SS confidence
Disorder																													?		?			?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	A	P	A	V	S	A	S	D	F	T	Q	N	A	H	S	F	R	E	Q	A	L	G	Q	T	L	G	L	V	V	A	Y	I	L	F	A	V	A	G	V	C	I	I	A	G	A	S	I	H	Y	G	A	D	T	W	N	V	L	D	I
Secondary structure
SS confidence
Disorder																																																?	?		?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	Q	R	W	D	S	L	F	A	S	F	F	A	V	L	V	I	L	M	T	T	I	S	T	N	A	T	G	N	I	I	P	A	G	Y	Q	I	A	A	I	A	P	T	K	L	T	Y	K	N	G	V	L	I	A	S	I	I	S	L	L
Secondary structure
SS confidence
Disorder																																									?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		I	C	P	W	K	L	M	E	N	Q	D	S	I	Y	L	F	L	D	I	I	G	G	M	L	G	P	V	I	G	V	M	M	A	H	Y	F	V	V	M	R	G	Q	I	N	L	D	E	L	Y	T	A	P	G	D	Y	K	Y	Y	D	N
Secondary structure
SS confidence
Disorder																																																			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		G	F	N	L	T	A	F	S	V	T	L	V	A	V	I	L	S	L	G	G	K	F	I	H	F	M	E	P	L	S	R	V	S	W	F	V	G	V	I	V	A	F	A	A	Y	A	L	L	K	K	R	T	T	A	E	K	T	G	E	Q
Secondary structure
SS confidence
Disorder																																																						?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.
Sequence		K	T	I	G
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 2jln chain A Region: 10 - 481 Aligned: 439 Modelled: 439 Confidence: 100.0% Identity: 20% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2xq2 chain A Region: 25 - 481 Aligned: 412 Modelled: 417 Confidence: 99.7% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 3dh4 chain A Region: 25 - 482 Aligned: 414 Modelled: 418 Confidence: 99.6% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus Phyre2 PDB 3gia chain A Region: 23 - 484 Aligned: 416 Modelled: 416 Confidence: 99.4% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 23 - 476 Aligned: 396 Modelled: 396 Confidence: 99.2% Identity: 13% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2a65 chain A domain 1 Region: 24 - 481 Aligned: 456 Modelled: 458 Confidence: 97.2% Identity: 10% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 2w8a chain C Region: 21 - 412 Aligned: 372 Modelled: 391 Confidence: 96.4% Identity: 12% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 3hfx chain A Region: 71 - 405 Aligned: 318 Modelled: 335 Confidence: 96.1% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 1pw4 chain A Region: 14 - 410 Aligned: 397 Modelled: 397 Confidence: 46.3% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2bg9 chain C Region: 1 - 26 Aligned: 26 Modelled: 26 Confidence: 37.7% Identity: 12% PDB header:ion channel/receptor Chain: C: PDB Molecule:acetylcholine receptor protein, delta chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. Phyre2 PDB 3qnq chain D Region: 455 - 481 Aligned: 27 Modelled: 27 Confidence: 27.7% Identity: 30% 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 2bg9 chain A Region: 2 - 21 Aligned: 20 Modelled: 20 Confidence: 23.4% Identity: 25% PDB header:ion channel/receptor Chain: A: PDB Molecule:acetylcholine receptor protein, alpha chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. Phyre2 PDB 3m7b chain A Region: 313 - 481 Aligned: 155 Modelled: 155 Confidence: 21.0% Identity: 10% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha Phyre2 PDB 2qc1 chain B Region: 2 - 25 Aligned: 24 Modelled: 24 Confidence: 14.5% Identity: 25% PDB header:protein binding Chain: B: PDB Molecule:acetylcholine receptor subunit alpha; PDBTitle: crystal structure of the extracellular domain of the nicotinic2 acetylcholine receptor 1 subunit bound to alpha-bungarotoxin at 1.9 a3 resolution Phyre2 PDB 1iwg chain A domain 8 Region: 351 - 475 Aligned: 125 Modelled: 125 Confidence: 14.2% Identity: 7% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2bg9 chain E Region: 2 - 24 Aligned: 23 Modelled: 23 Confidence: 13.8% Identity: 13% PDB header:ion channel/receptor Chain: E: PDB Molecule:acetylcholine receptor protein, gamma chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. Phyre2 PDB 1r8j chain B Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 9.4% Identity: 32% PDB header:circadian clock protein Chain: B: PDB Molecule:kaia; PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus Phyre2 PDB 2rax chain Y Region: 13 - 33 Aligned: 21 Modelled: 21 Confidence: 9.2% Identity: 24% PDB header:cell cycle Chain: Y: PDB Molecule:borealin; PDBTitle: crystal structure of borealin (20-78) bound to survivin (1-120) Phyre2 PDB 1nj8 chain A domain 2 Region: 6 - 18 Aligned: 13 Modelled: 13 Confidence: 7.6% Identity: 31% Fold: IF3-like Superfamily: C-terminal domain of ProRS Family: C-terminal domain of ProRS Phyre2 PDB 3bow chain C Region: 2 - 26 Aligned: 19 Modelled: 25 Confidence: 7.4% Identity: 32% PDB header:hydrolase/hydrolase inhibitor Chain: C: PDB Molecule:calpastatin; PDBTitle: structure of m-calpain in complex with calpastatin Phyre2 1 c2jlnA_ 2 c2xq2A_ 3 c3dh4A_ 4 c3giaA_ 5 c3lrcC_ 6 d2a65a1 7 c2w8aC_ 8 c3hfxA_ 9 d1pw4a_ 10 c2bg9C_ 11 c3qnqD_ 12 c2bg9A_ 13 c3m7bA_ 14 c2qc1B_ 15 d1iwga8 16 c2bg9E_ 17 c1r8jB_ 18 c2raxY_ 19 d1nj8a2 20 c3bowC_ 21 22 23 24 25 26 27 28 29 30 31

Detailed template information

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

1 c2jlnA_ 100.0 20 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 2 c2xq2A_ 99.7 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 3 c3dh4A_ 99.6 13 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 4 c3giaA_ 99.4 10 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 5 c3lrcC_ 99.2 13 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 6 d2a65a1 97.2 10 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 7 c2w8aC_ 96.4 12 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 8 c3hfxA_ 96.1 11 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 9 d1pw4a_ 46.3 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 10 c2bg9C_ 37.7 12 PDB header:ion channel/receptor Chain: C: PDB Molecule:acetylcholine receptor protein, delta chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. 11 c3qnqD_ 27.7 30 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 12 c2bg9A_ 23.4 25 PDB header:ion channel/receptor Chain: A: PDB Molecule:acetylcholine receptor protein, alpha chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. 13 c3m7bA_ 21.0 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha 14 c2qc1B_ 14.5 25 PDB header:protein binding Chain: B: PDB Molecule:acetylcholine receptor subunit alpha; PDBTitle: crystal structure of the extracellular domain of the nicotinic2 acetylcholine receptor 1 subunit bound to alpha-bungarotoxin at 1.9 a3 resolution 15 d1iwga8 14.2 7 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 16 c2bg9E_ 13.8 13 PDB header:ion channel/receptor Chain: E: PDB Molecule:acetylcholine receptor protein, gamma chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. 17 c1r8jB_ 9.4 32 PDB header:circadian clock protein Chain: B: PDB Molecule:kaia; PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus 18 c2raxY_ 9.2 24 PDB header:cell cycle Chain: Y: PDB Molecule:borealin; PDBTitle: crystal structure of borealin (20-78) bound to survivin (1-120) 19 d1nj8a2 7.6 31 Fold:IF3-like Superfamily:C-terminal domain of ProRS Family:C-terminal domain of ProRS 20 c3bowC_ 7.4 32 PDB header:hydrolase/hydrolase inhibitor Chain: C: PDB Molecule:calpastatin; PDBTitle: structure of m-calpain in complex with calpastatin 21 d2auwa1 not modelled 6.8 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 22 d1eexa_ not modelled 6.6 8 Fold:TIM beta/alpha-barrel Superfamily:Cobalamin (vitamin B12)-dependent enzymes Family:Diol dehydratase, alpha subunit 23 d1t98a1 not modelled 6.0 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MukF N-terminal domain-like 24 c1nauA_ not modelled 5.9 32 PDB header:hormone/growth factor Chain: A: PDB Molecule:glucagon; PDBTitle: nmr solution structure of the glucagon antagonist [deshis1,2 desphe6, glu9]glucagon amide in the presence of3 perdeuterated dodecylphosphocholine micelles 25 c2auwB_ not modelled 5.5 13 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 26 d1zbxb1 not modelled 5.4 24 Fold:ORC1-binding domain Superfamily:ORC1-binding domain Family:ORC1-binding domain 27 c2k2wA_ not modelled 5.4 11 PDB header:cell cycle Chain: A: PDB Molecule:recombination and dna repair protein; PDBTitle: second brct domain of nbs1 28 c2wj8N_ not modelled 5.3 7 PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein 29 d1e6va2 not modelled 5.3 20 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase alpha and beta chain N-terminal domain 30 c1bh0A_ not modelled 5.3 27 PDB header:synthetic hormone Chain: A: PDB Molecule:glucagon; PDBTitle: structure of a glucagon analog 31 d2fgca2 not modelled 5.1 44 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-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