Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	A	R	M	F	V	L	C	C	I	W	F	I	V	A	F	L	W	I	T	I	T	S	A	L	D	K	E	W	M	I	D	G	R	G	I	N	N	V	C	D	V	L	M	Y	L	E	E	D	D	T	R	D	V	G	V	I	M	T
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.
Sequence		L	P	L	F	F	P	F	L	W	F	A	L	W	R	K	K	R	G	W	F	M	Y	A	T	A	L	A	I	F	G	Y	W	L	W	Q	F	F	L	R	Y	Q	F	C	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 3iee chain A Region: 23 - 40 Aligned: 18 Modelled: 18 Confidence: 13.3% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of hypothetical protein bf3319 from bacteroides2 fragilis (yp_212931.1) from bacteroides fragilis nctc 9343 at 1.70 a3 resolution Phyre2 PDB 2axp chain A domain 1 Region: 31 - 47 Aligned: 17 Modelled: 17 Confidence: 8.7% Identity: 18% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nucleotide and nucleoside kinases Phyre2 PDB 2f1f chain A domain 2 Region: 35 - 54 Aligned: 20 Modelled: 20 Confidence: 8.3% Identity: 10% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 2fgc chain A domain 1 Region: 35 - 54 Aligned: 20 Modelled: 20 Confidence: 7.5% Identity: 15% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 3m92 chain B Region: 25 - 37 Aligned: 13 Modelled: 13 Confidence: 7.5% Identity: 15% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ycin; PDBTitle: the structure of ycin, an unchracterized protein from shigella2 flexneri. Phyre2 PDB 2pc6 chain A domain 1 Region: 35 - 54 Aligned: 20 Modelled: 18 Confidence: 7.1% Identity: 15% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 1pjv chain A Region: 27 - 41 Aligned: 15 Modelled: 15 Confidence: 7.1% Identity: 33% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Scorpion toxin-like Family: Short-chain scorpion toxins Phyre2 PDB 1pu1 chain A Region: 24 - 34 Aligned: 11 Modelled: 11 Confidence: 5.7% Identity: 27% Fold: Hypothetical protein MTH677 Superfamily: Hypothetical protein MTH677 Family: Hypothetical protein MTH677 Phyre2 PDB 1zq1 chain C domain 1 Region: 48 - 54 Aligned: 7 Modelled: 7 Confidence: 5.5% Identity: 57% Fold: GatB/YqeY motif Superfamily: GatB/YqeY motif Family: GatB/GatE C-terminal domain-like Phyre2 PDB 2fxp chain A Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 5.4% Identity: 27% PDB header:viral protein Chain: A: PDB Molecule:spike glycoprotein; PDBTitle: solution structure of the sars-coronavirus hr2 domain Phyre2 1 c3ieeA_ 2 d2axpa1 3 d2f1fa2 4 d2fgca1 5 c3m92B_ 6 d2pc6a1 7 d1pjva_ 8 d1pu1a_ 9 d1zq1c1 10 c2fxpA_

Detailed template information

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

1 c3ieeA_ 13.3 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of hypothetical protein bf3319 from bacteroides2 fragilis (yp_212931.1) from bacteroides fragilis nctc 9343 at 1.70 a3 resolution 2 d2axpa1 8.7 18 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases 3 d2f1fa2 8.3 10 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 4 d2fgca1 7.5 15 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 5 c3m92B_ 7.5 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ycin; PDBTitle: the structure of ycin, an unchracterized protein from shigella2 flexneri. 6 d2pc6a1 7.1 15 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 7 d1pjva_ 7.1 33 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 8 d1pu1a_ 5.7 27 Fold:Hypothetical protein MTH677 Superfamily:Hypothetical protein MTH677 Family:Hypothetical protein MTH677 9 d1zq1c1 5.5 57 Fold:GatB/YqeY motif Superfamily:GatB/YqeY motif Family:GatB/GatE C-terminal domain-like 10 c2fxpA_ 5.4 27 PDB header:viral protein Chain: A: PDB Molecule:spike glycoprotein; PDBTitle: solution structure of the sars-coronavirus hr2 domain

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