Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	N	D	N	T	D	Y	V	S	N	E	S	G	T	L	S	R	L	F	K	L	P	Q	H	G	T	T	V	R	T	E	L	I	A	G	M	T	T	F	L	T	M	V	Y	I	V	F	V	N	P	Q	I	L	G	A	A	Q	M	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?											?																														?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	K	V	V	F	V	T	T	C	L	I	A	G	I	G	S	I	A	M	G	I	F	A	N	L	P	V	A	L	A	P	A	M	G	L	N	A	F	F	A	F	V	V	V	G	A	M	G	I	S	W	Q	T	G	M	G	A	I	F	W
Secondary structure
SS confidence
Disorder		?																							?			?	?	?	?	?	?														?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	A	V	G	L	F	L	L	T	L	F	R	I	R	Y	W	M	I	S	N	I	P	L	S	L	R	I	G	I	T	S	G	I	G	L	F	I	A	L	M	G	L	K	N	T	G	V	I	V	A	N	K	D	T	L	V	M	I	G	D
Secondary structure
SS confidence
Disorder																																											?	?	?	?	?			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	S	S	H	G	V	L	L	G	I	L	G	F	F	I	I	T	V	L	S	S	R	H	F	H	A	A	V	L	V	S	I	V	V	T	S	C	C	G	L	F	F	G	D	V	H	F	S	G	V	Y	S	I	P	P	D	I	S	G	V
Secondary structure
SS confidence
Disorder																																																?					?		?			?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	G	E	V	D	L	S	G	A	L	T	L	E	L	A	G	I	I	F	S	F	M	L	I	N	L	F	D	S	S	G	T	L	I	G	V	T	D	K	A	G	L	I	D	G	N	G	K	F	P	N	M	N	K	A	L	Y	V	D	S
Secondary structure
SS confidence
Disorder		?			?		?		?	?		?																													?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	S	S	V	A	G	A	F	I	G	T	S	S	V	T	A	Y	I	E	S	T	S	G	V	A	V	G	G	R	T	G	L	T	A	V	V	V	G	V	M	F	L	L	V	M	F	F	S	P	L	V	A	I	V	P	P	Y	A	T	A
Secondary structure
SS confidence
Disorder											?				?	?	?		?	?	?				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		G	A	L	I	F	V	G	V	L	M	T	S	S	L	A	R	V	N	W	D	D	F	T	E	S	V	P	A	F	I	T	T	V	M	M	P	F	T	F	S	I	T	E	G	I	A	L	G	F	M	S	Y	C	I	M	K	V	C	T	G
Secondary structure
SS confidence
Disorder																																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.
Sequence		R	W	R	D	L	N	L	C	V	V	V	V	A	A	L	F	A	L	K	I	I	L	V	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 3qe7 chain A Region: 18 - 418 Aligned: 385 Modelled: 399 Confidence: 100.0% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa Phyre2 PDB 3lpz chain A Region: 300 - 313 Aligned: 14 Modelled: 14 Confidence: 15.7% Identity: 14% PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 Phyre2 PDB 2dme chain A Region: 2 - 36 Aligned: 32 Modelled: 35 Confidence: 15.5% Identity: 16% PDB header:metal binding protein Chain: A: PDB Molecule:phd finger protein 3; PDBTitle: solution structure of the tfiis domain ii of human phd2 finger protein 3 Phyre2 PDB 1w7c chain A domain 3 Region: 12 - 38 Aligned: 22 Modelled: 27 Confidence: 11.2% Identity: 23% Fold: Cystatin-like Superfamily: Amine oxidase N-terminal region Family: Amine oxidase N-terminal region Phyre2 PDB 2elp chain A Region: 15 - 35 Aligned: 19 Modelled: 21 Confidence: 10.9% Identity: 16% PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 Phyre2 PDB 3din chain D Region: 372 - 422 Aligned: 51 Modelled: 51 Confidence: 10.1% Identity: 10% PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase Phyre2 PDB 2jqo chain A Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 9.5% Identity: 16% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yoba; PDBTitle: nmr solution structure of bacillus subtilis yoba 21-120:2 northeast structural genomics consortium target sr547 Phyre2 PDB 1enw chain A Region: 2 - 36 Aligned: 32 Modelled: 35 Confidence: 9.4% Identity: 6% Fold: RuvA C-terminal domain-like Superfamily: Elongation factor TFIIS domain 2 Family: Elongation factor TFIIS domain 2 Phyre2 PDB 1w3g chain A Region: 13 - 31 Aligned: 19 Modelled: 19 Confidence: 9.0% Identity: 16% PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. Phyre2 PDB 2axt chain F domain 1 Region: 417 - 441 Aligned: 25 Modelled: 25 Confidence: 7.9% Identity: 24% Fold: Single transmembrane helix Superfamily: Cytochrome b559 subunits Family: Cytochrome b559 subunits Phyre2 PDB 3ndq chain A Region: 2 - 36 Aligned: 32 Modelled: 32 Confidence: 7.8% Identity: 22% PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor a protein 1; PDBTitle: structure of human tfiis domain ii Phyre2 PDB 1xsz chain A domain 2 Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 6.9% Identity: 16% Fold: TBP-like Superfamily: RalF, C-terminal domain Family: RalF, C-terminal domain Phyre2 PDB 3arc chain L Region: 428 - 441 Aligned: 14 Modelled: 14 Confidence: 6.7% Identity: 29% PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 3e5a chain B Region: 7 - 25 Aligned: 19 Modelled: 19 Confidence: 6.5% Identity: 11% PDB header:transferase Chain: B: PDB Molecule:targeting protein for xklp2; PDBTitle: crystal structure of aurora a in complex with vx-680 and tpx2 Phyre2 PDB 1p7g chain A domain 2 Region: 7 - 25 Aligned: 19 Modelled: 19 Confidence: 6.3% Identity: 5% Fold: Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily: Fe,Mn superoxide dismutase (SOD), C-terminal domain Family: Fe,Mn superoxide dismutase (SOD), C-terminal domain Phyre2 PDB 3er7 chain A domain 1 Region: 16 - 33 Aligned: 18 Modelled: 18 Confidence: 6.1% Identity: 28% Fold: Cystatin-like Superfamily: NTF2-like Family: Exig0174-like Phyre2 PDB 2ht2 chain B Region: 14 - 223 Aligned: 199 Modelled: 210 Confidence: 5.9% Identity: 13% PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex Phyre2 PDB 3bu8 chain B Region: 6 - 35 Aligned: 30 Modelled: 30 Confidence: 5.5% Identity: 13% PDB header:dna binding protein Chain: B: PDB Molecule:telomeric repeat-binding factor 2; PDBTitle: crystal structure of trf2 trfh domain and tin2 peptide2 complex Phyre2 PDB 1dt0 chain A domain 2 Region: 7 - 26 Aligned: 20 Modelled: 20 Confidence: 5.4% Identity: 15% Fold: Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily: Fe,Mn superoxide dismutase (SOD), C-terminal domain Family: Fe,Mn superoxide dismutase (SOD), C-terminal domain Phyre2 PDB 2aex chain A Region: 3 - 26 Aligned: 24 Modelled: 24 Confidence: 5.4% Identity: 13% PDB header:oxidoreductase Chain: A: PDB Molecule:coproporphyrinogen iii oxidase, mitochondrial; PDBTitle: the 1.58a crystal structure of human coproporphyrinogen oxidase2 reveals the structural basis of hereditary coproporphyria Phyre2 1 c3qe7A_ 2 c3lpzA_ 3 c2dmeA_ 4 d1w7ca3 5 c2elpA_ 6 c3dinD_ 7 c2jqoA_ 8 d1enwa_ 9 c1w3gA_ 10 d2axtf1 11 c3ndqA_ 12 d1xsza2 13 c3arcl_ 14 c3e5aB_ 15 d1p7ga2 16 d3er7a1 17 c2ht2B_ 18 c3bu8B_ 19 d1dt0a2 20 c2aexA_ 21

Detailed template information

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

1 c3qe7A_ 100.0 11 PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa 2 c3lpzA_ 15.7 14 PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 3 c2dmeA_ 15.5 16 PDB header:metal binding protein Chain: A: PDB Molecule:phd finger protein 3; PDBTitle: solution structure of the tfiis domain ii of human phd2 finger protein 3 4 d1w7ca3 11.2 23 Fold:Cystatin-like Superfamily:Amine oxidase N-terminal region Family:Amine oxidase N-terminal region 5 c2elpA_ 10.9 16 PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 6 c3dinD_ 10.1 10 PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase 7 c2jqoA_ 9.5 16 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yoba; PDBTitle: nmr solution structure of bacillus subtilis yoba 21-120:2 northeast structural genomics consortium target sr547 8 d1enwa_ 9.4 6 Fold:RuvA C-terminal domain-like Superfamily:Elongation factor TFIIS domain 2 Family:Elongation factor TFIIS domain 2 9 c1w3gA_ 9.0 16 PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. 10 d2axtf1 7.9 24 Fold:Single transmembrane helix Superfamily:Cytochrome b559 subunits Family:Cytochrome b559 subunits 11 c3ndqA_ 7.8 22 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor a protein 1; PDBTitle: structure of human tfiis domain ii 12 d1xsza2 6.9 16 Fold:TBP-like Superfamily:RalF, C-terminal domain Family:RalF, C-terminal domain 13 c3arcl_ 6.7 29 PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 14 c3e5aB_ 6.5 11 PDB header:transferase Chain: B: PDB Molecule:targeting protein for xklp2; PDBTitle: crystal structure of aurora a in complex with vx-680 and tpx2 15 d1p7ga2 6.3 5 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 16 d3er7a1 6.1 28 Fold:Cystatin-like Superfamily:NTF2-like Family:Exig0174-like 17 c2ht2B_ 5.9 13 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 18 c3bu8B_ 5.5 13 PDB header:dna binding protein Chain: B: PDB Molecule:telomeric repeat-binding factor 2; PDBTitle: crystal structure of trf2 trfh domain and tin2 peptide2 complex 19 d1dt0a2 5.4 15 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 20 c2aexA_ 5.4 13 PDB header:oxidoreductase Chain: A: PDB Molecule:coproporphyrinogen iii oxidase, mitochondrial; PDBTitle: the 1.58a crystal structure of human coproporphyrinogen oxidase2 reveals the structural basis of hereditary coproporphyria 21 d1txna_ not modelled 5.3 8 Fold:Coproporphyrinogen III oxidase Superfamily:Coproporphyrinogen III oxidase Family:Coproporphyrinogen III oxidase

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