Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	R	I	F	I	P	T	S	N	G	K	I	S	R	R	R	Y	I	F	S	F	I	L	I	N	F	I	F	A	F	L	I	I	F	F	N	D	G	E	A	G	F	L	V	I	V	S	T	I	V	L	H	Y	L	V	I	N	M	N
Secondary structure
SS confidence
Disorder		?	?					?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	Q	R	L	R	D	S	G	F	I	Y	I	K	T	Y	V	F	G	T	L	A	V	Y	I	I	S	I	I	T	M	I	A	E	D	F	A	C	S	G	N	G	S	M	I	F	L	I	C	Y	F	S	T	F	S	M	L	M	L	A	P
Secondary structure
SS confidence
Disorder																																																												?	?
Disorder confidence
		.	.	.	.	.	.
Sequence		T	D	S	S	K	Q
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 1vqo chain Q domain 1 Region: 7 - 21 Aligned: 15 Modelled: 15 Confidence: 24.4% Identity: 33% Fold: SH3-like barrel Superfamily: Translation proteins SH3-like domain Family: Ribosomal proteins L24p and L21e Phyre2 PDB 1ag7 chain A Region: 96 - 102 Aligned: 7 Modelled: 7 Confidence: 11.4% Identity: 86% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: omega toxin-like Family: Conotoxin Phyre2 PDB 2qtd chain A Region: 3 - 16 Aligned: 14 Modelled: 14 Confidence: 9.8% Identity: 29% PDB header:oxidoreductase Chain: A: PDB Molecule:uncharacterized protein mj0327; PDBTitle: crystal structure of a putative dinitrogenase (mj0327) from2 methanocaldococcus jannaschii dsm at 1.70 a resolution Phyre2 PDB 2khg chain A Region: 36 - 42 Aligned: 7 Modelled: 7 Confidence: 8.7% Identity: 86% PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in tfe Phyre2 PDB 2pe4 chain A Region: 72 - 101 Aligned: 30 Modelled: 30 Confidence: 8.3% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:hyaluronidase-1; PDBTitle: structure of human hyaluronidase 1, a hyaluronan hydrolyzing enzyme2 involved in tumor growth and angiogenesis Phyre2 PDB 2khf chain A Region: 36 - 42 Aligned: 7 Modelled: 7 Confidence: 7.5% Identity: 86% PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in dpc-micelles Phyre2 PDB 3m3n chain W Region: 96 - 100 Aligned: 5 Modelled: 5 Confidence: 6.9% Identity: 100% PDB header:structural protein Chain: W: PDB Molecule:neural wiskott-aldrich syndrome protein; PDBTitle: structure of a longitudinal actin dimer assembled by tandem w domains Phyre2 PDB 3iz5 chain U Region: 7 - 21 Aligned: 15 Modelled: 15 Confidence: 6.5% Identity: 40% PDB header:ribosome Chain: U: PDB Molecule:60s ribosomal protein l21 (l21e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 1uyp chain A domain 1 Region: 34 - 41 Aligned: 8 Modelled: 8 Confidence: 6.4% Identity: 63% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolases family 32 C-terminal domain Phyre2 PDB 2uuy chain B domain 1 Region: 97 - 114 Aligned: 18 Modelled: 18 Confidence: 5.8% Identity: 33% Fold: BPTI-like Superfamily: BPTI-like Family: Tick tryptase inhibitor-like Phyre2 PDB 2wb6 chain A Region: 58 - 106 Aligned: 44 Modelled: 49 Confidence: 5.8% Identity: 34% PDB header:viral protein Chain: A: PDB Molecule:afv1-102; PDBTitle: crystal structure of afv1-102, a protein from the acidianus2 filamentous virus 1 Phyre2 PDB 3izc chain U Region: 7 - 21 Aligned: 15 Modelled: 15 Confidence: 5.4% Identity: 47% PDB header:ribosome Chain: U: PDB Molecule:60s ribosomal protein rpl21 (l21e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 1 d1vqoq1 2 d1ag7a_ 3 c2qtdA_ 4 c2khgA_ 5 c2pe4A_ 6 c2khfA_ 7 c3m3nW_ 8 c3iz5U_ 9 d1uypa1 10 d2uuyb1 11 c2wb6A_ 12 c3izcU_

Detailed template information

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

1 d1vqoq1 24.4 33 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:Ribosomal proteins L24p and L21e 2 d1ag7a_ 11.4 86 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:omega toxin-like Family:Conotoxin 3 c2qtdA_ 9.8 29 PDB header:oxidoreductase Chain: A: PDB Molecule:uncharacterized protein mj0327; PDBTitle: crystal structure of a putative dinitrogenase (mj0327) from2 methanocaldococcus jannaschii dsm at 1.70 a resolution 4 c2khgA_ 8.7 86 PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in tfe 5 c2pe4A_ 8.3 33 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronidase-1; PDBTitle: structure of human hyaluronidase 1, a hyaluronan hydrolyzing enzyme2 involved in tumor growth and angiogenesis 6 c2khfA_ 7.5 86 PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in dpc-micelles 7 c3m3nW_ 6.9 100 PDB header:structural protein Chain: W: PDB Molecule:neural wiskott-aldrich syndrome protein; PDBTitle: structure of a longitudinal actin dimer assembled by tandem w domains 8 c3iz5U_ 6.5 40 PDB header:ribosome Chain: U: PDB Molecule:60s ribosomal protein l21 (l21e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 9 d1uypa1 6.4 63 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolases family 32 C-terminal domain 10 d2uuyb1 5.8 33 Fold:BPTI-like Superfamily:BPTI-like Family:Tick tryptase inhibitor-like 11 c2wb6A_ 5.8 34 PDB header:viral protein Chain: A: PDB Molecule:afv1-102; PDBTitle: crystal structure of afv1-102, a protein from the acidianus2 filamentous virus 1 12 c3izcU_ 5.4 47 PDB header:ribosome Chain: U: PDB Molecule:60s ribosomal protein rpl21 (l21e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome

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