Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	N	E	K	R	K	T	G	I	E	P	K	V	F	F	P	P	L	I	I	V	G	I	L	C	W	L	T	V	R	D	L	D	A	A	N	V	V	I	N	A	V	F	S	Y	V	T	N	V	W	G	W	A	F	E	W	Y	M	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	M	L	F	G	W	F	W	L	V	F	G	P	Y	A	K	K	R	L	G	N	E	P	P	E	F	S	T	A	S	W	I	F	M	M	F	A	S	C	T	S	A	A	V	L	F	W	G	S	I	E	I	Y	Y	Y	I	S	T	P	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	G	L	E	P	N	S	T	G	A	K	E	L	G	L	A	Y	S	L	F	H	W	G	P	L	P	W	A	T	Y	S	F	L	S	V	A	F	A	Y	F	F	F	V	R	K	M	E	V	I	R	P	S	S	T	L	V	P	L	V	G
Secondary structure
SS confidence
Disorder		?		?	?	?																																										?			?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		E	K	H	A	K	G	L	F	G	T	I	V	D	N	F	Y	L	V	A	L	I	F	A	M	G	T	S	L	G	L	A	T	P	L	V	T	E	C	M	Q	W	L	F	G	I	P	H	T	L	Q	L	D	A	I	I	I	T	C	W	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	L	N	A	I	C	V	A	C	G	L	Q	K	G	V	R	I	A	S	D	V	R	S	Y	L	S	F	L	M	L	G	W	V	F	I	V	S	G	A	S	F	I	M	N	Y	F	T	D	S	V	G	M	L	L	M	Y	L	P	R	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	F	Y	T	D	P	I	A	K	G	G	F	P	Q	G	W	T	V	F	Y	W	A	W	W	V	I	Y	A	I	Q	M	S	I	F	L	A	R	I	S	R	G	R	T	V	R	E	L	C	F	G	M	V	L	G	L	T	A	S	T	W
Secondary structure
SS confidence
Disorder										?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		I	L	W	T	V	L	G	S	N	T	L	L	L	I	D	K	N	I	I	N	I	P	N	L	I	E	Q	Y	G	V	A	R	A	I	I	E	T	W	A	A	L	P	L	S	T	A	T	M	W	G	F	F	I	L	C	F	I	A	T	V
Secondary structure
SS confidence
Disorder																			?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		T	L	V	N	A	C	S	Y	T	L	A	M	S	T	C	R	E	V	R	D	G	E	E	P	P	L	L	V	R	I	G	W	S	I	L	V	G	I	I	G	I	V	L	L	A	L	G	G	L	K	P	I	Q	T	A	I	I	A	G	G
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?	?	?																							?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.
Sequence		C	P	L	F	F	V	N	I	M	V	T	L	S	F	I	K	D	A	K	Q	N	W	K	D
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 3hfx chain A Region: 12 - 504 Aligned: 493 Modelled: 493 Confidence: 100.0% Identity: 100% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2w8a chain C Region: 9 - 504 Aligned: 484 Modelled: 495 Confidence: 100.0% Identity: 26% 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 2xq2 chain A Region: 141 - 492 Aligned: 336 Modelled: 352 Confidence: 98.2% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 2a65 chain A domain 1 Region: 224 - 504 Aligned: 266 Modelled: 281 Confidence: 97.6% Identity: 15% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3dh4 chain A Region: 142 - 492 Aligned: 339 Modelled: 351 Confidence: 97.3% 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 2jln chain A Region: 140 - 503 Aligned: 333 Modelled: 343 Confidence: 97.1% Identity: 9% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 3lrc chain C Region: 142 - 504 Aligned: 313 Modelled: 313 Confidence: 85.1% Identity: 12% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 3gia chain A Region: 142 - 504 Aligned: 331 Modelled: 331 Confidence: 83.3% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3gzt chain F Region: 311 - 320 Aligned: 10 Modelled: 10 Confidence: 23.6% Identity: 40% PDB header:virus Chain: F: PDB Molecule:outer capsid glycoprotein vp7; PDBTitle: vp7 recoated rotavirus dlp Phyre2 PDB 2kvl chain A Region: 311 - 320 Aligned: 10 Modelled: 10 Confidence: 23.3% Identity: 40% PDB header:viral protein Chain: A: PDB Molecule:major outer capsid protein vp7; PDBTitle: nmr structure of the c-terminal domain of vp7 Phyre2 PDB 1zza chain A Region: 148 - 188 Aligned: 40 Modelled: 41 Confidence: 11.4% Identity: 20% PDB header:membrane protein Chain: A: PDB Molecule:stannin; PDBTitle: solution nmr structure of the membrane protein stannin Phyre2 PDB 1qmv chain A Region: 75 - 87 Aligned: 13 Modelled: 13 Confidence: 6.6% Identity: 31% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Glutathione peroxidase-like Phyre2 PDB 1xb4 chain C Region: 115 - 186 Aligned: 56 Modelled: 57 Confidence: 6.5% Identity: 20% PDB header:unknown function Chain: C: PDB Molecule:hypothetical 23.6 kda protein in yuh1-ura8 PDBTitle: crystal structure of subunit vps25 of the endosomal2 trafficking complex escrt-ii Phyre2 PDB 3f1i chain H Region: 331 - 344 Aligned: 14 Modelled: 14 Confidence: 5.9% Identity: 36% PDB header:protein binding Chain: H: PDB Molecule:hepatocyte growth factor-regulated tyrosine kinase PDBTitle: human escrt-0 core complex Phyre2 PDB 1qq2 chain A Region: 75 - 87 Aligned: 13 Modelled: 13 Confidence: 5.9% Identity: 23% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Glutathione peroxidase-like Phyre2 PDB 3eyp chain B Region: 120 - 147 Aligned: 28 Modelled: 28 Confidence: 5.7% Identity: 25% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of putative alpha-l-fucosidase from bacteroides2 thetaiotaomicron Phyre2 PDB 1jxh chain A Region: 330 - 346 Aligned: 17 Modelled: 17 Confidence: 5.6% Identity: 24% Fold: Ribokinase-like Superfamily: Ribokinase-like Family: Thiamin biosynthesis kinases Phyre2 1 c3hfxA_ 2 c2w8aC_ 3 c2xq2A_ 4 d2a65a1 5 c3dh4A_ 6 c2jlnA_ 7 c3lrcC_ 8 c3giaA_ 9 c3gztF_ 10 c2kvlA_ 11 c1zzaA_ 12 d1qmva_ 13 c1xb4C_ 14 c3f1iH_ 15 d1qq2a_ 16 c3eypB_ 17 d1jxha_

Detailed template information

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

1 c3hfxA_ 100.0 100 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 2 c2w8aC_ 100.0 26 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 3 c2xq2A_ 98.2 14 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 4 d2a65a1 97.6 15 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 5 c3dh4A_ 97.3 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 6 c2jlnA_ 97.1 9 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 7 c3lrcC_ 85.1 12 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 8 c3giaA_ 83.3 9 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 9 c3gztF_ 23.6 40 PDB header:virus Chain: F: PDB Molecule:outer capsid glycoprotein vp7; PDBTitle: vp7 recoated rotavirus dlp 10 c2kvlA_ 23.3 40 PDB header:viral protein Chain: A: PDB Molecule:major outer capsid protein vp7; PDBTitle: nmr structure of the c-terminal domain of vp7 11 c1zzaA_ 11.4 20 PDB header:membrane protein Chain: A: PDB Molecule:stannin; PDBTitle: solution nmr structure of the membrane protein stannin 12 d1qmva_ 6.6 31 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like 13 c1xb4C_ 6.5 20 PDB header:unknown function Chain: C: PDB Molecule:hypothetical 23.6 kda protein in yuh1-ura8 PDBTitle: crystal structure of subunit vps25 of the endosomal2 trafficking complex escrt-ii 14 c3f1iH_ 5.9 36 PDB header:protein binding Chain: H: PDB Molecule:hepatocyte growth factor-regulated tyrosine kinase PDBTitle: human escrt-0 core complex 15 d1qq2a_ 5.9 23 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like 16 c3eypB_ 5.7 25 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of putative alpha-l-fucosidase from bacteroides2 thetaiotaomicron 17 d1jxha_ 5.6 24 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases

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