Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	V	Q	K	E	L	V	A	I	Y	D	Y	E	V	P	V	P	E	D	P	F	S	F	R	L	E	I	H	K	C	S	E	L	F	T	G	S	V	Y	R	L	E	R	F	R	L	R	P	T	F	H	Q	R	D	R	E	D	A	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																												?			?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.
Sequence		P	L	I	N	D	A	L	I	Y	I	R	D	E	C	I	D	E	R	K	L	R	G	E	S	P	E	T	V	I	A	I	F	N	R	E	L	Q	N	I	F	N	Q	E	I	E
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 2j06 chain B Region: 4 - 25 Aligned: 22 Modelled: 22 Confidence: 29.9% Identity: 27% PDB header:signal transduction Chain: B: PDB Molecule:ras gtpase-activating protein 1; PDBTitle: crystal structure of the rasgap sh3 domain at 1.8 angstrom2 resolution Phyre2 PDB 2ds5 chain A domain 1 Region: 50 - 76 Aligned: 27 Modelled: 27 Confidence: 25.2% Identity: 33% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: ClpX chaperone zinc binding domain Phyre2 PDB 2ds8 chain A Region: 50 - 77 Aligned: 28 Modelled: 28 Confidence: 25.2% Identity: 32% PDB header:metal binding protein, protein binding Chain: A: PDB Molecule:atp-dependent clp protease atp-binding subunit PDBTitle: structure of the zbd-xb complex Phyre2 PDB 1ovx chain B Region: 50 - 76 Aligned: 27 Modelled: 27 Confidence: 24.6% Identity: 33% PDB header:metal binding protein Chain: B: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx; PDBTitle: nmr structure of the e. coli clpx chaperone zinc binding domain dimer Phyre2 PDB 2egc chain A Region: 3 - 25 Aligned: 21 Modelled: 23 Confidence: 24.6% Identity: 33% PDB header:signaling protein Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a; PDBTitle: solution structure of the fifth sh3 domain from human2 kiaa0418 protein Phyre2 PDB 3trk chain A Region: 57 - 96 Aligned: 40 Modelled: 40 Confidence: 22.3% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:nonstructural polyprotein; PDBTitle: structure of the chikungunya virus nsp2 protease Phyre2 PDB 1t0j chain A Region: 3 - 25 Aligned: 23 Modelled: 23 Confidence: 20.7% Identity: 39% PDB header:signaling protein Chain: A: PDB Molecule:voltage-gated calcium channel subunit beta2a; PDBTitle: crystal structure of a complex between voltage-gated calcium channel2 beta2a subunit and a peptide of the alpha1c subunit Phyre2 PDB 2ege chain A Region: 5 - 25 Aligned: 21 Modelled: 21 Confidence: 17.4% Identity: 24% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein kiaa1666; PDBTitle: solution structure of the third sh3 domain from human2 kiaa1666 protein Phyre2 PDB 1t0h chain A Region: 3 - 25 Aligned: 23 Modelled: 23 Confidence: 16.2% Identity: 39% Fold: SH3-like barrel Superfamily: SH3-domain Family: SH3-domain Phyre2 PDB 1k9a chain B Region: 5 - 25 Aligned: 20 Modelled: 21 Confidence: 14.7% Identity: 25% PDB header:transferase Chain: B: PDB Molecule:carboxyl-terminal src kinase; PDBTitle: crystal structure analysis of full-length carboxyl-terminal2 src kinase at 2.5 a resolution Phyre2 PDB 1gri chain A Region: 6 - 25 Aligned: 19 Modelled: 20 Confidence: 13.6% Identity: 32% PDB header:signal transduction adaptor Chain: A: PDB Molecule:growth factor bound protein 2; PDBTitle: grb2 Phyre2 PDB 1vyv chain A domain 1 Region: 3 - 25 Aligned: 23 Modelled: 23 Confidence: 12.6% Identity: 39% Fold: SH3-like barrel Superfamily: SH3-domain Family: SH3-domain Phyre2 PDB 3tbi chain A Region: 70 - 81 Aligned: 12 Modelled: 12 Confidence: 12.0% Identity: 58% PDB header:transcription Chain: A: PDB Molecule:rna polymerase-associated protein gp33; PDBTitle: crystal structure of t4 gp33 bound to e. coli rnap beta-flap domain Phyre2 PDB 2ke9 chain A Region: 8 - 25 Aligned: 18 Modelled: 18 Confidence: 11.7% Identity: 17% PDB header:protein binding Chain: A: PDB Molecule:caskin-2; PDBTitle: nmr solution structure of the caskin sh3 domain Phyre2 PDB 2lhf chain A Region: 4 - 24 Aligned: 21 Modelled: 21 Confidence: 10.8% Identity: 24% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein h1; PDBTitle: solution structure of outer membrane protein h (oprh) from p.2 aeruginosa in dhpc micelles Phyre2 PDB 2nvu chain C domain 1 Region: 3 - 43 Aligned: 41 Modelled: 41 Confidence: 10.5% Identity: 20% Fold: UBC-like Superfamily: UBC-like Family: UBC-related Phyre2 PDB 1jqq chain A Region: 7 - 25 Aligned: 19 Modelled: 19 Confidence: 9.6% Identity: 26% Fold: SH3-like barrel Superfamily: SH3-domain Family: SH3-domain Phyre2 PDB 2h8h chain A Region: 8 - 25 Aligned: 17 Modelled: 18 Confidence: 9.5% Identity: 53% PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase src; PDBTitle: src kinase in complex with a quinazoline inhibitor Phyre2 PDB 1z9z chain A Region: 4 - 25 Aligned: 21 Modelled: 22 Confidence: 8.7% Identity: 14% PDB header:structural protein Chain: A: PDB Molecule:cytoskeleton assembly control protein sla1; PDBTitle: crystal structure of yeast sla1 sh3 domain 3 Phyre2 PDB 2bnm chain A domain 1 Region: 80 - 95 Aligned: 16 Modelled: 16 Confidence: 8.4% Identity: 63% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 1 c2j06B_ 2 d2ds5a1 3 c2ds8A_ 4 c1ovxB_ 5 c2egcA_ 6 c3trkA_ 7 c1t0jA_ 8 c2egeA_ 9 d1t0ha_ 10 c1k9aB_ 11 c1griA_ 12 d1vyva1 13 c3tbiA_ 14 c2ke9A_ 15 c2lhfA_ 16 d2nvuc1 17 d1jqqa_ 18 c2h8hA_ 19 c1z9zA_ 20 d2bnma1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47

Detailed template information

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

1 c2j06B_ 29.9 27 PDB header:signal transduction Chain: B: PDB Molecule:ras gtpase-activating protein 1; PDBTitle: crystal structure of the rasgap sh3 domain at 1.8 angstrom2 resolution 2 d2ds5a1 25.2 33 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:ClpX chaperone zinc binding domain 3 c2ds8A_ 25.2 32 PDB header:metal binding protein, protein binding Chain: A: PDB Molecule:atp-dependent clp protease atp-binding subunit PDBTitle: structure of the zbd-xb complex 4 c1ovxB_ 24.6 33 PDB header:metal binding protein Chain: B: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx; PDBTitle: nmr structure of the e. coli clpx chaperone zinc binding domain dimer 5 c2egcA_ 24.6 33 PDB header:signaling protein Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a; PDBTitle: solution structure of the fifth sh3 domain from human2 kiaa0418 protein 6 c3trkA_ 22.3 25 PDB header:hydrolase Chain: A: PDB Molecule:nonstructural polyprotein; PDBTitle: structure of the chikungunya virus nsp2 protease 7 c1t0jA_ 20.7 39 PDB header:signaling protein Chain: A: PDB Molecule:voltage-gated calcium channel subunit beta2a; PDBTitle: crystal structure of a complex between voltage-gated calcium channel2 beta2a subunit and a peptide of the alpha1c subunit 8 c2egeA_ 17.4 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein kiaa1666; PDBTitle: solution structure of the third sh3 domain from human2 kiaa1666 protein 9 d1t0ha_ 16.2 39 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 10 c1k9aB_ 14.7 25 PDB header:transferase Chain: B: PDB Molecule:carboxyl-terminal src kinase; PDBTitle: crystal structure analysis of full-length carboxyl-terminal2 src kinase at 2.5 a resolution 11 c1griA_ 13.6 32 PDB header:signal transduction adaptor Chain: A: PDB Molecule:growth factor bound protein 2; PDBTitle: grb2 12 d1vyva1 12.6 39 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 13 c3tbiA_ 12.0 58 PDB header:transcription Chain: A: PDB Molecule:rna polymerase-associated protein gp33; PDBTitle: crystal structure of t4 gp33 bound to e. coli rnap beta-flap domain 14 c2ke9A_ 11.7 17 PDB header:protein binding Chain: A: PDB Molecule:caskin-2; PDBTitle: nmr solution structure of the caskin sh3 domain 15 c2lhfA_ 10.8 24 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein h1; PDBTitle: solution structure of outer membrane protein h (oprh) from p.2 aeruginosa in dhpc micelles 16 d2nvuc1 10.5 20 Fold:UBC-like Superfamily:UBC-like Family:UBC-related 17 d1jqqa_ 9.6 26 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 18 c2h8hA_ 9.5 53 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase src; PDBTitle: src kinase in complex with a quinazoline inhibitor 19 c1z9zA_ 8.7 14 PDB header:structural protein Chain: A: PDB Molecule:cytoskeleton assembly control protein sla1; PDBTitle: crystal structure of yeast sla1 sh3 domain 3 20 d2bnma1 8.4 63 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 21 c3u02C_ not modelled 8.3 21 PDB header:transcription Chain: C: PDB Molecule:putative transcription-associated protein tfiis; PDBTitle: crystal structure of the trna modifier tias from pyrococcus furiosus,2 northeast structural genomics consortium target pfr225 22 d2jn9a1 not modelled 8.3 38 Fold:Split barrel-like Superfamily:YkvR-like Family:YkvR-like 23 d1uj0a_ not modelled 8.3 30 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 24 c1y57A_ not modelled 7.9 50 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase src; PDBTitle: structure of unphosphorylated c-src in complex with an inhibitor 25 d1t3la1 not modelled 7.8 37 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 26 c1s1nA_ not modelled 7.7 25 PDB header:cell adhesion Chain: A: PDB Molecule:nephrocystin 1; PDBTitle: sh3 domain of human nephrocystin 27 c2c0iA_ not modelled 7.7 44 PDB header:transferase Chain: A: PDB Molecule:tyrosine-protein kinase hck; PDBTitle: src family kinase hck with bound inhibitor a-420983 28 c1oplA_ not modelled 7.7 33 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase; PDBTitle: structural basis for the auto-inhibition of c-abl tyrosine2 kinase 29 c2j6kE_ not modelled 7.4 32 PDB header:protein binding Chain: E: PDB Molecule:cd2-associated protein; PDBTitle: n-terminal sh3 domain of cms (cd2ap human homolog) 30 c3rnjA_ not modelled 7.3 18 PDB header:protein binding Chain: A: PDB Molecule:brain-specific angiogenesis inhibitor 1-associated protein PDBTitle: crystal structure of the sh3 domain from irsp53 (baiap2) 31 c2csqA_ not modelled 7.3 38 PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:rim binding protein 2; PDBTitle: solution structure of the second sh3 domain of human rim-2 binding protein 2 32 c2cucA_ not modelled 7.0 15 PDB header:signaling protein Chain: A: PDB Molecule:sh3 domain containing ring finger 2; PDBTitle: solution structure of the sh3 domain of the mouse2 hypothetical protein sh3rf2 33 c2fo0A_ not modelled 6.6 33 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase abl1 (1b isoform); PDBTitle: organization of the sh3-sh2 unit in active and inactive forms of the2 c-abl tyrosine kinase 34 c2pqhA_ not modelled 6.5 29 PDB header:structural protein Chain: A: PDB Molecule:spectrin alpha chain, brain; PDBTitle: structure of sh3 chimera with a type ii ligand linked to the chain c-2 terminal 35 c2dm1A_ not modelled 6.3 25 PDB header:signaling protein Chain: A: PDB Molecule:protein vav-2; PDBTitle: solution structure of the second sh3 domain of human2 protein vav-2 36 d1spka_ not modelled 6.2 14 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 37 c1x27F_ not modelled 6.1 28 PDB header:signaling protein Chain: F: PDB Molecule:proto-oncogene tyrosine-protein kinase lck; PDBTitle: crystal structure of lck sh2-sh3 with sh2 binding site of2 p130cas 38 d2v1ra1 not modelled 6.1 23 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 39 c2hwkA_ not modelled 6.0 26 PDB header:hydrolase Chain: A: PDB Molecule:helicase nsp2; PDBTitle: crystal structure of venezuelan equine encephalitis2 alphavirus nsp2 protease domain 40 d1awja_ not modelled 6.0 23 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 41 c1g83A_ not modelled 5.8 50 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase fyn; PDBTitle: crystal structure of fyn sh3-sh2 42 d1gria1 not modelled 5.7 32 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 43 c2d8jA_ not modelled 5.6 35 PDB header:transferase Chain: A: PDB Molecule:fyn-related kinase; PDBTitle: solution structure of the sh3 domain of fyn-related kinase 44 c1x2pA_ not modelled 5.4 45 PDB header:transferase Chain: A: PDB Molecule:protein arginine n-methyltransferase 2; PDBTitle: solution structure of the sh3 domain of the protein2 arginine n-methyltransferase 2 45 c2dmoA_ not modelled 5.3 11 PDB header:signaling protein Chain: A: PDB Molecule:neutrophil cytosol factor 2; PDBTitle: refined solution structure of the 1st sh3 domain from human2 neutrophil cytosol factor 2 (ncf-2) 46 c2dlpA_ not modelled 5.2 14 PDB header:structural protein Chain: A: PDB Molecule:kiaa1783 protein; PDBTitle: solution structure of the sh3 domain of human kiaa17832 protein 47 d1lcka1 not modelled 5.1 24 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-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