Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	L	I	S	N	D	L	R	D	G	D	K	L	P	H	R	H	V	F	N	G	M	G	Y	D	G	D	N	I	S	P	H	L	A	W	D	D	V	P	A	G	T	K	S	F	V	V	T	C	Y	D	P	D	A	P	T	G	S	G
Secondary structure
SS confidence
Disorder		?				?	?	?		?	?	?											?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		W	W	H	W	V	V	V	N	L	P	A	D	T	R	V	L	P	Q	G	F	G	S	G	L	V	A	M	P	D	G	V	L	Q	T	R	T	D	F	G	K	T	G	Y	D	G	A	A	P	P	K	G	E	T	H	R	Y	I	F	T	V
Secondary structure
SS confidence
Disorder																		?	?		?	?	?	?	?	?	?	?	?	?	?	?	?								?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.
Sequence		H	A	L	D	I	E	R	I	D	V	D	E	G	A	S	G	A	M	V	G	F	N	V	H	F	H	S	L	A	S	A	S	I	T	A	M	F	S
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 1fjj chain A Region: 1 - 158 Aligned: 158 Modelled: 157 Confidence: 100.0% Identity: 97% Fold: PEBP-like Superfamily: PEBP-like Family: Prokaryotic PEBP-like proteins Phyre2 PDB 1fux chain A Region: 1 - 158 Aligned: 158 Modelled: 158 Confidence: 100.0% Identity: 50% Fold: PEBP-like Superfamily: PEBP-like Family: Prokaryotic PEBP-like proteins Phyre2 PDB 3n08 chain A Region: 1 - 158 Aligned: 144 Modelled: 153 Confidence: 100.0% Identity: 33% PDB header:phosphatidylethanolamine-binding protein Chain: A: PDB Molecule:putative phosphatidylethanolamine-binding protein (pebp); PDBTitle: crystal structure of a putative phosphatidylethanolamine-binding2 protein (pebp) homolog ct736 from chlamydia trachomatis d/uw-3/cx Phyre2 PDB 2evv chain D Region: 1 - 157 Aligned: 154 Modelled: 157 Confidence: 100.0% Identity: 22% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein hp0218; PDBTitle: crystal structure of the pebp-like protein of unknown function hp02182 from helicobacter pylori Phyre2 PDB 1wpx chain B domain 1 Region: 8 - 157 Aligned: 127 Modelled: 139 Confidence: 99.8% Identity: 26% Fold: PEBP-like Superfamily: PEBP-like Family: Phosphatidylethanolamine binding protein Phyre2 PDB 2r77 chain A Region: 5 - 122 Aligned: 103 Modelled: 103 Confidence: 99.8% Identity: 23% PDB header:lipid binding protein Chain: A: PDB Molecule:phosphatidylethanolamine-binding protein, putative; PDBTitle: crystal structure of phosphatidylethanolamine-binding protein,2 pfl0955c, from plasmodium falciparum Phyre2 PDB 2gzq chain A Region: 5 - 133 Aligned: 106 Modelled: 114 Confidence: 99.8% Identity: 22% PDB header:lipid binding protein Chain: A: PDB Molecule:phosphatidylethanolamine-binding protein; PDBTitle: phosphatidylethanolamine-binding protein from plasmodium vivax Phyre2 PDB 2jyz chain A Region: 4 - 135 Aligned: 104 Modelled: 114 Confidence: 99.8% Identity: 31% PDB header:unknown function Chain: A: PDB Molecule:cg7054-pa; PDBTitle: cg7054 solution structure Phyre2 PDB 1wkp chain A Region: 1 - 157 Aligned: 125 Modelled: 138 Confidence: 99.7% Identity: 22% PDB header:signaling protein Chain: A: PDB Molecule:flowering locus t protein; PDBTitle: flowering locus t (ft) from arabidopsis thaliana Phyre2 PDB 1qou chain A Region: 8 - 142 Aligned: 105 Modelled: 116 Confidence: 99.6% Identity: 21% Fold: PEBP-like Superfamily: PEBP-like Family: Phosphatidylethanolamine binding protein Phyre2 PDB 1kn3 chain A Region: 1 - 132 Aligned: 102 Modelled: 103 Confidence: 99.6% Identity: 30% Fold: PEBP-like Superfamily: PEBP-like Family: Phosphatidylethanolamine binding protein Phyre2 PDB 1a44 chain A Region: 32 - 142 Aligned: 90 Modelled: 91 Confidence: 99.6% Identity: 31% Fold: PEBP-like Superfamily: PEBP-like Family: Phosphatidylethanolamine binding protein Phyre2 PDB 2qyq chain A domain 1 Region: 5 - 132 Aligned: 98 Modelled: 108 Confidence: 99.6% Identity: 33% Fold: PEBP-like Superfamily: PEBP-like Family: Phosphatidylethanolamine binding protein Phyre2 PDB 3ks7 chain D Region: 25 - 66 Aligned: 42 Modelled: 42 Confidence: 35.7% Identity: 24% PDB header:hydrolase Chain: D: PDB Molecule:putative putative pngase f; PDBTitle: crystal structure of putative peptide:n-glycosidase f (pngase f)2 (yp_210507.1) from bacteroides fragilis nctc 9343 at 2.30 a3 resolution Phyre2 PDB 3d7j chain D Region: 103 - 144 Aligned: 41 Modelled: 42 Confidence: 10.7% Identity: 5% PDB header:unknown function Chain: D: PDB Molecule:uncharacterized protein sco6650; PDBTitle: sco6650, a 6-pyruvoyltetrahydropterin synthase homolog from2 streptomyces coelicolor Phyre2 PDB 3pnr chain B Region: 48 - 69 Aligned: 21 Modelled: 22 Confidence: 9.2% Identity: 29% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 Phyre2 PDB 2dj6 chain B Region: 103 - 144 Aligned: 39 Modelled: 42 Confidence: 8.9% Identity: 13% PDB header:lyase Chain: B: PDB Molecule:hypothetical protein ph0634; PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3 Phyre2 PDB 3kml chain B Region: 34 - 49 Aligned: 16 Modelled: 16 Confidence: 6.9% Identity: 44% PDB header:viral protein Chain: B: PDB Molecule:coat protein; PDBTitle: circular permutant of the tobacco mosaic virus Phyre2 PDB 1ljz chain B Region: 59 - 76 Aligned: 18 Modelled: 18 Confidence: 6.2% Identity: 44% PDB header:receptor, toxin Chain: B: PDB Molecule:acetylcholine receptor protein; PDBTitle: nmr structure of an achr-peptide (torpedo californica,2 alpha-subunit residues 182-202) in complex with alpha-3 bungarotoxin Phyre2 PDB 1qcs chain A domain 1 Region: 81 - 120 Aligned: 38 Modelled: 40 Confidence: 5.6% Identity: 16% Fold: Double psi beta-barrel Superfamily: ADC-like Family: Cdc48 N-terminal domain-like Phyre2 1 d1fjja_ 2 d1fuxa_ 3 c3n08A_ 4 c2evvD_ 5 d1wpxb1 6 c2r77A_ 7 c2gzqA_ 8 c2jyzA_ 9 c1wkpA_ 10 d1qoua_ 11 d1kn3a_ 12 d1a44a_ 13 d2qyqa1 14 c3ks7D_ 15 c3d7jD_ 16 c3pnrB_ 17 c2dj6B_ 18 c3kmlB_ 19 c1ljzB_ 20 d1qcsa1

Detailed template information

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

1 d1fjja_ 100.0 97 Fold:PEBP-like Superfamily:PEBP-like Family:Prokaryotic PEBP-like proteins 2 d1fuxa_ 100.0 50 Fold:PEBP-like Superfamily:PEBP-like Family:Prokaryotic PEBP-like proteins 3 c3n08A_ 100.0 33 PDB header:phosphatidylethanolamine-binding protein Chain: A: PDB Molecule:putative phosphatidylethanolamine-binding protein (pebp); PDBTitle: crystal structure of a putative phosphatidylethanolamine-binding2 protein (pebp) homolog ct736 from chlamydia trachomatis d/uw-3/cx 4 c2evvD_ 100.0 22 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein hp0218; PDBTitle: crystal structure of the pebp-like protein of unknown function hp02182 from helicobacter pylori 5 d1wpxb1 99.8 26 Fold:PEBP-like Superfamily:PEBP-like Family:Phosphatidylethanolamine binding protein 6 c2r77A_ 99.8 23 PDB header:lipid binding protein Chain: A: PDB Molecule:phosphatidylethanolamine-binding protein, putative; PDBTitle: crystal structure of phosphatidylethanolamine-binding protein,2 pfl0955c, from plasmodium falciparum 7 c2gzqA_ 99.8 22 PDB header:lipid binding protein Chain: A: PDB Molecule:phosphatidylethanolamine-binding protein; PDBTitle: phosphatidylethanolamine-binding protein from plasmodium vivax 8 c2jyzA_ 99.8 31 PDB header:unknown function Chain: A: PDB Molecule:cg7054-pa; PDBTitle: cg7054 solution structure 9 c1wkpA_ 99.7 22 PDB header:signaling protein Chain: A: PDB Molecule:flowering locus t protein; PDBTitle: flowering locus t (ft) from arabidopsis thaliana 10 d1qoua_ 99.6 21 Fold:PEBP-like Superfamily:PEBP-like Family:Phosphatidylethanolamine binding protein 11 d1kn3a_ 99.6 30 Fold:PEBP-like Superfamily:PEBP-like Family:Phosphatidylethanolamine binding protein 12 d1a44a_ 99.6 31 Fold:PEBP-like Superfamily:PEBP-like Family:Phosphatidylethanolamine binding protein 13 d2qyqa1 99.6 33 Fold:PEBP-like Superfamily:PEBP-like Family:Phosphatidylethanolamine binding protein 14 c3ks7D_ 35.7 24 PDB header:hydrolase Chain: D: PDB Molecule:putative putative pngase f; PDBTitle: crystal structure of putative peptide:n-glycosidase f (pngase f)2 (yp_210507.1) from bacteroides fragilis nctc 9343 at 2.30 a3 resolution 15 c3d7jD_ 10.7 5 PDB header:unknown function Chain: D: PDB Molecule:uncharacterized protein sco6650; PDBTitle: sco6650, a 6-pyruvoyltetrahydropterin synthase homolog from2 streptomyces coelicolor 16 c3pnrB_ 9.2 29 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 17 c2dj6B_ 8.9 13 PDB header:lyase Chain: B: PDB Molecule:hypothetical protein ph0634; PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3 18 c3kmlB_ 6.9 44 PDB header:viral protein Chain: B: PDB Molecule:coat protein; PDBTitle: circular permutant of the tobacco mosaic virus 19 c1ljzB_ 6.2 44 PDB header:receptor, toxin Chain: B: PDB Molecule:acetylcholine receptor protein; PDBTitle: nmr structure of an achr-peptide (torpedo californica,2 alpha-subunit residues 182-202) in complex with alpha-3 bungarotoxin 20 d1qcsa1 5.6 16 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Cdc48 N-terminal domain-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