Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	V	L	Y	P	L	I	Q	A	L	V	L	F	A	V	A	P	L	L	S	G	I	T	R	V	A	R	A	R	L	H	N	R	R	G	P	G	V	L	Q	E	Y	R	D	I	I	K	L	L	G	R	Q	S	V	G	P	D	A	S
Secondary structure
SS confidence
Disorder		?	?																																																			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	W	V	F	R	L	T	P	Y	V	M	V	G	V	M	L	T	I	A	T	A	L	P	V	V	T	V	G	S	P	L	P	Q	L	G	D	L	I	T	L	L	Y	L	F	A	I	A	R	F	F	F	A	I	S	G	L	D	T	G	S
Secondary structure
SS confidence
Disorder																											?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	F	T	A	I	G	A	S	R	E	A	M	L	G	V	L	V	E	P	M	L	L	L	G	L	W	V	A	A	Q	V	A	G	S	T	N	I	S	N	I	T	D	T	V	Y	H	W	P	L	S	Q	S	I	P	L	V	L	A	L	C
Secondary structure
SS confidence
Disorder						?																																										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	C	A	F	A	T	F	I	E	M	G	K	L	P	F	D	L	A	E	A	E	Q	E	L	Q	E	G	P	L	S	E	Y	S	G	S	G	F	G	V	M	K	W	G	I	S	L	K	Q	L	V	V	L	Q	M	F	V	G	V	F	I
Secondary structure
SS confidence
Disorder											?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		P	W	G	Q	M	E	T	F	T	A	G	G	L	L	L	A	L	V	I	A	I	V	K	L	V	V	G	V	L	V	I	A	L	F	E	N	S	M	A	R	L	R	L	D	I	T	P	R	I	T	W	A	G	F	G	F	A	F	L	A
Secondary structure
SS confidence
Disorder						?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		F	V	S	L	L	A	A
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 3rko chain L Region: 58 - 203 Aligned: 136 Modelled: 146 Confidence: 95.6% Identity: 15% PDB header:oxidoreductase Chain: L: PDB Molecule:nadh-quinone oxidoreductase subunit l; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 2jpm chain A Region: 38 - 62 Aligned: 25 Modelled: 25 Confidence: 37.8% Identity: 16% PDB header:antimicrobial protein Chain: A: PDB Molecule:bacteriocin lactococcin-g subunit beta; PDBTitle: lactococcin g-b in tfe Phyre2 PDB 1q2i chain A Region: 37 - 52 Aligned: 16 Modelled: 16 Confidence: 34.2% Identity: 44% PDB header:antitumor protein Chain: A: PDB Molecule:pnc27; PDBTitle: nmr solution structure of a peptide from the mdm-2 binding2 domain of the p53 protein that is selectively cytotoxic to3 cancer cells Phyre2 PDB 1lbq chain A Region: 32 - 53 Aligned: 22 Modelled: 22 Confidence: 32.8% Identity: 27% Fold: Chelatase-like Superfamily: Chelatase Family: Ferrochelatase Phyre2 PDB 3rko chain M Region: 71 - 273 Aligned: 194 Modelled: 203 Confidence: 30.1% Identity: 11% PDB header:oxidoreductase Chain: M: PDB Molecule:nadh-quinone oxidoreductase subunit m; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 1xn8 chain A Region: 195 - 229 Aligned: 35 Modelled: 35 Confidence: 25.7% Identity: 17% Fold: Hypothetical protein YqbG Superfamily: Hypothetical protein YqbG Family: Hypothetical protein YqbG Phyre2 PDB 2hrc chain A domain 1 Region: 32 - 53 Aligned: 22 Modelled: 22 Confidence: 15.7% Identity: 27% Fold: Chelatase-like Superfamily: Chelatase Family: Ferrochelatase Phyre2 PDB 2hk6 chain A domain 1 Region: 32 - 53 Aligned: 22 Modelled: 22 Confidence: 11.1% Identity: 23% Fold: Chelatase-like Superfamily: Chelatase Family: Ferrochelatase Phyre2 PDB 2dbh chain A Region: 24 - 45 Aligned: 22 Modelled: 22 Confidence: 10.2% Identity: 23% PDB header:signaling protein Chain: A: PDB Molecule:tumor necrosis factor receptor superfamily PDBTitle: solution structure of the carboxyl-terminal card-like2 domain in human tnfr-related death receptor-6 Phyre2 PDB 2vxs chain B Region: 191 - 201 Aligned: 11 Modelled: 10 Confidence: 8.3% Identity: 27% PDB header:cytokine Chain: B: PDB Molecule:interleukin-17a; PDBTitle: structure of il-17a in complex with a potent, fully human2 neutralising antibody Phyre2 PDB 1ufr chain A Region: 195 - 214 Aligned: 20 Modelled: 20 Confidence: 7.9% Identity: 15% Fold: PRTase-like Superfamily: PRTase-like Family: Phosphoribosyltransferases (PRTases) Phyre2 PDB 3dpg chain A Region: 30 - 46 Aligned: 17 Modelled: 17 Confidence: 7.3% Identity: 29% PDB header:hydrolase/dna Chain: A: PDB Molecule:sgrair restriction enzyme; PDBTitle: sgrai with noncognate dna bound Phyre2 PDB 1jpy chain A Region: 191 - 201 Aligned: 11 Modelled: 11 Confidence: 5.8% Identity: 18% Fold: Cystine-knot cytokines Superfamily: Cystine-knot cytokines Family: Interleukin 17F, IL-17F Phyre2 PDB 3eto chain B Region: 180 - 205 Aligned: 26 Modelled: 26 Confidence: 5.7% Identity: 19% PDB header:signaling protein Chain: B: PDB Molecule:neurogenic locus notch homolog protein 1; PDBTitle: 2 angstrom xray structure of the notch1 negative regulatory region2 (nrr) Phyre2 PDB 1eys chain M Region: 9 - 46 Aligned: 38 Modelled: 38 Confidence: 5.6% Identity: 13% Fold: Bacterial photosystem II reaction centre, L and M subunits Superfamily: Bacterial photosystem II reaction centre, L and M subunits Family: Bacterial photosystem II reaction centre, L and M subunits Phyre2 PDB 2jz8 chain A Region: 193 - 208 Aligned: 16 Modelled: 16 Confidence: 5.6% Identity: 25% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bh09830; PDBTitle: solution nmr structure of bh09830 from bartonella henselae2 modeled with one zn+2 bound. northeast structural genomics3 consortium target bnr55 Phyre2 PDB 2j8c chain M domain 1 Region: 9 - 46 Aligned: 38 Modelled: 38 Confidence: 5.6% Identity: 13% Fold: Bacterial photosystem II reaction centre, L and M subunits Superfamily: Bacterial photosystem II reaction centre, L and M subunits Family: Bacterial photosystem II reaction centre, L and M subunits Phyre2 PDB 2k8f chain B Region: 35 - 57 Aligned: 23 Modelled: 23 Confidence: 5.5% Identity: 35% PDB header:transferase/transcription Chain: B: PDB Molecule:cellular tumor antigen p53; PDBTitle: structural basis for the regulation of p53 function by p300 Phyre2 PDB 3llb chain A Region: 196 - 215 Aligned: 20 Modelled: 20 Confidence: 5.3% Identity: 15% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: the crystal structure of the protein pa3983 with unknown2 function from pseudomonas aeruginosa pao1 Phyre2 1 c3rkoL_ 2 c2jpmA_ 3 c1q2iA_ 4 d1lbqa_ 5 c3rkoM_ 6 d1xn8a_ 7 d2hrca1 8 d2hk6a1 9 c2dbhA_ 10 c2vxsB_ 11 d1ufra_ 12 c3dpgA_ 13 d1jpya_ 14 c3etoB_ 15 d1eysm_ 16 c2jz8A_ 17 d2j8cm1 18 c2k8fB_ 19 c3llbA_

Detailed template information

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

1 c3rkoL_ 95.6 15 PDB header:oxidoreductase Chain: L: PDB Molecule:nadh-quinone oxidoreductase subunit l; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution 2 c2jpmA_ 37.8 16 PDB header:antimicrobial protein Chain: A: PDB Molecule:bacteriocin lactococcin-g subunit beta; PDBTitle: lactococcin g-b in tfe 3 c1q2iA_ 34.2 44 PDB header:antitumor protein Chain: A: PDB Molecule:pnc27; PDBTitle: nmr solution structure of a peptide from the mdm-2 binding2 domain of the p53 protein that is selectively cytotoxic to3 cancer cells 4 d1lbqa_ 32.8 27 Fold:Chelatase-like Superfamily:Chelatase Family:Ferrochelatase 5 c3rkoM_ 30.1 11 PDB header:oxidoreductase Chain: M: PDB Molecule:nadh-quinone oxidoreductase subunit m; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution 6 d1xn8a_ 25.7 17 Fold:Hypothetical protein YqbG Superfamily:Hypothetical protein YqbG Family:Hypothetical protein YqbG 7 d2hrca1 15.7 27 Fold:Chelatase-like Superfamily:Chelatase Family:Ferrochelatase 8 d2hk6a1 11.1 23 Fold:Chelatase-like Superfamily:Chelatase Family:Ferrochelatase 9 c2dbhA_ 10.2 23 PDB header:signaling protein Chain: A: PDB Molecule:tumor necrosis factor receptor superfamily PDBTitle: solution structure of the carboxyl-terminal card-like2 domain in human tnfr-related death receptor-6 10 c2vxsB_ 8.3 27 PDB header:cytokine Chain: B: PDB Molecule:interleukin-17a; PDBTitle: structure of il-17a in complex with a potent, fully human2 neutralising antibody 11 d1ufra_ 7.9 15 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 12 c3dpgA_ 7.3 29 PDB header:hydrolase/dna Chain: A: PDB Molecule:sgrair restriction enzyme; PDBTitle: sgrai with noncognate dna bound 13 d1jpya_ 5.8 18 Fold:Cystine-knot cytokines Superfamily:Cystine-knot cytokines Family:Interleukin 17F, IL-17F 14 c3etoB_ 5.7 19 PDB header:signaling protein Chain: B: PDB Molecule:neurogenic locus notch homolog protein 1; PDBTitle: 2 angstrom xray structure of the notch1 negative regulatory region2 (nrr) 15 d1eysm_ 5.6 13 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 16 c2jz8A_ 5.6 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bh09830; PDBTitle: solution nmr structure of bh09830 from bartonella henselae2 modeled with one zn+2 bound. northeast structural genomics3 consortium target bnr55 17 d2j8cm1 5.6 13 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 18 c2k8fB_ 5.5 35 PDB header:transferase/transcription Chain: B: PDB Molecule:cellular tumor antigen p53; PDBTitle: structural basis for the regulation of p53 function by p300 19 c3llbA_ 5.3 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: the crystal structure of the protein pa3983 with unknown2 function from pseudomonas aeruginosa pao1

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