Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	Q	T	L	C	D	G	Y	L	V	I	F	A	L	A	Q	A	V	I	L	L	M	L	T	P	L	F	T	G	I	S	R	Q	I	R	A	R	M	H	S	R	R	G	P	G	I	W	Q	D	Y	R	D	I	H	K	L	F	K	R
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	E	V	A	P	T	S	S	G	L	M	F	R	L	M	P	W	V	L	I	S	S	M	L	V	L	A	M	A	L	P	L	F	I	T	V	S	P	F	A	G	G	G	D	L	I	T	L	I	Y	L	L	A	L	F	R	F	F	F	A
Secondary structure
SS confidence
Disorder		?			?																															?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	S	G	L	D	T	G	S	P	F	A	G	V	G	A	S	R	E	L	T	L	G	I	L	V	E	P	M	L	I	L	S	L	L	V	L	A	L	I	A	G	S	T	H	I	E	M	I	S	N	T	L	A	M	G	W	N	S	P	L
Secondary structure
SS confidence
Disorder									?					?	?																																								?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	T	V	L	A	L	L	A	C	G	F	A	C	F	I	E	M	G	K	I	P	F	D	V	A	E	A	E	Q	E	L	Q	E	G	P	L	T	E	Y	S	G	A	G	L	A	L	A	K	W	G	L	G	L	K	Q	V	V	M	A	S
Secondary structure
SS confidence
Disorder																		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	F	V	A	L	F	L	P	F	G	R	A	Q	E	L	S	L	A	C	L	L	T	S	L	V	V	T	L	L	K	V	L	L	I	F	V	L	A	S	I	A	E	N	T	L	A	R	G	R	F	L	L	I	H	H	V	T	W	L	G
Secondary structure
SS confidence
Disorder													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.
Sequence		F	S	L	A	A	L	A	W	V	F	W	L	T	G	L
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: 84 - 210 Aligned: 127 Modelled: 127 Confidence: 91.3% Identity: 13% 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 1q2i chain A Region: 45 - 60 Aligned: 16 Modelled: 16 Confidence: 39.9% Identity: 38% 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 2jpm chain A Region: 46 - 63 Aligned: 18 Modelled: 18 Confidence: 22.9% Identity: 11% PDB header:antimicrobial protein Chain: A: PDB Molecule:bacteriocin lactococcin-g subunit beta; PDBTitle: lactococcin g-b in tfe Phyre2 PDB 1lbq chain A Region: 40 - 61 Aligned: 22 Modelled: 22 Confidence: 17.9% Identity: 18% Fold: Chelatase-like Superfamily: Chelatase Family: Ferrochelatase Phyre2 PDB 1xn8 chain A Region: 202 - 232 Aligned: 31 Modelled: 31 Confidence: 14.2% Identity: 26% Fold: Hypothetical protein YqbG Superfamily: Hypothetical protein YqbG Family: Hypothetical protein YqbG Phyre2 PDB 1ufr chain A Region: 202 - 221 Aligned: 20 Modelled: 20 Confidence: 9.8% Identity: 20% Fold: PRTase-like Superfamily: PRTase-like Family: Phosphoribosyltransferases (PRTases) Phyre2 PDB 3rko chain M Region: 79 - 280 Aligned: 194 Modelled: 195 Confidence: 9.2% Identity: 16% 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 2k8f chain B Region: 43 - 65 Aligned: 23 Modelled: 23 Confidence: 6.8% Identity: 26% 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 2vxs chain B Region: 198 - 208 Aligned: 11 Modelled: 10 Confidence: 6.7% 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 2rmr chain A Region: 33 - 63 Aligned: 29 Modelled: 31 Confidence: 5.7% Identity: 34% PDB header:transcription Chain: A: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of msin3a pah1 domain Phyre2 PDB 2hrc chain A domain 1 Region: 40 - 61 Aligned: 22 Modelled: 22 Confidence: 5.7% Identity: 18% Fold: Chelatase-like Superfamily: Chelatase Family: Ferrochelatase Phyre2 1 c3rkoL_ 2 c1q2iA_ 3 c2jpmA_ 4 d1lbqa_ 5 d1xn8a_ 6 d1ufra_ 7 c3rkoM_ 8 c2k8fB_ 9 c2vxsB_ 10 c2rmrA_ 11 d2hrca1

Detailed template information

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

1 c3rkoL_ 91.3 13 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 c1q2iA_ 39.9 38 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 3 c2jpmA_ 22.9 11 PDB header:antimicrobial protein Chain: A: PDB Molecule:bacteriocin lactococcin-g subunit beta; PDBTitle: lactococcin g-b in tfe 4 d1lbqa_ 17.9 18 Fold:Chelatase-like Superfamily:Chelatase Family:Ferrochelatase 5 d1xn8a_ 14.2 26 Fold:Hypothetical protein YqbG Superfamily:Hypothetical protein YqbG Family:Hypothetical protein YqbG 6 d1ufra_ 9.8 20 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 7 c3rkoM_ 9.2 16 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 8 c2k8fB_ 6.8 26 PDB header:transferase/transcription Chain: B: PDB Molecule:cellular tumor antigen p53; PDBTitle: structural basis for the regulation of p53 function by p300 9 c2vxsB_ 6.7 27 PDB header:cytokine Chain: B: PDB Molecule:interleukin-17a; PDBTitle: structure of il-17a in complex with a potent, fully human2 neutralising antibody 10 c2rmrA_ 5.7 34 PDB header:transcription Chain: A: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of msin3a pah1 domain 11 d2hrca1 5.7 18 Fold:Chelatase-like Superfamily:Chelatase Family:Ferrochelatase

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