Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	R	V	T	A	I	I	S	A	L	I	I	C	I	I	V	S	L	S	W	A	V	N	H	Y	R	D	N	A	I	A	Y	K	V	Q	R	D	K	N	A	R	E	L	K	L	A	N	A	A	I	T	D	M	Q	M	R	Q	R	D
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	A	A	L	D	A	K	Y	T	K	E	L	A	D	A	K	A	E	N	D	A	L	R	D	D	V	A	A	G	R	R	R	L	H	I	K	A	V	C	Q	S	V	R	E	A	T	T	A	S	G	V	D	N	A	A	S	P	R	L	A
Secondary structure
SS confidence
Disorder																															?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.
Sequence		D	T	A	E	R	D	Y	F	T	L	R	E	R	L	I	T	M	Q	K	Q	L	E	G	T	Q	K	Y	I	N	E	Q	C	R
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 1n73 chain A Region: 118 - 151 Aligned: 34 Modelled: 34 Confidence: 66.6% Identity: 26% PDB header:blood clotting Chain: A: PDB Molecule:fibrin alpha-1 chain; PDBTitle: fibrin d-dimer, lamprey complexed with the peptide ligand: gly-his-2 arg-pro-amide Phyre2 PDB 3ghg chain D Region: 118 - 151 Aligned: 34 Modelled: 34 Confidence: 38.5% Identity: 18% PDB header:blood clotting Chain: D: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of human fibrinogen Phyre2 PDB 1m1j chain A Region: 118 - 151 Aligned: 34 Modelled: 34 Confidence: 31.8% Identity: 26% PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha subunit; PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands Phyre2 PDB 3m9b chain K Region: 50 - 87 Aligned: 38 Modelled: 38 Confidence: 25.6% Identity: 29% PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa Phyre2 PDB 1hf9 chain B Region: 63 - 88 Aligned: 26 Modelled: 26 Confidence: 20.9% Identity: 19% PDB header:atpase inhibitor Chain: B: PDB Molecule:atpase inhibitor (mitochondrial); PDBTitle: c-terminal coiled-coil domain from bovine if1 Phyre2 PDB 1pnb chain A Region: 138 - 151 Aligned: 14 Modelled: 14 Confidence: 14.8% Identity: 29% PDB header:seed storage protein Chain: A: PDB Molecule:napin bnib; PDBTitle: structure of napin bnib, nmr, 10 structures Phyre2 PDB 3din chain E Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 13.1% Identity: 19% PDB header:membrane protein, protein transport Chain: E: PDB Molecule:preprotein translocase subunit secg; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase Phyre2 PDB 2w6b chain A Region: 32 - 74 Aligned: 43 Modelled: 43 Confidence: 11.4% Identity: 21% PDB header:signaling protein Chain: A: PDB Molecule:rho guanine nucleotide exchange factor 7; PDBTitle: crystal structure of the trimeric beta-pix coiled-coil2 domain Phyre2 PDB 2c9l chain Z Region: 67 - 83 Aligned: 17 Modelled: 17 Confidence: 11.3% Identity: 53% PDB header:viral protein Chain: Z: PDB Molecule:bzlf1 trans-activator protein; PDBTitle: structure of the epstein-barr virus zebra protein Phyre2 PDB 3dl8 chain F Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 10.7% Identity: 24% PDB header:protein transport Chain: F: PDB Molecule:protein-export membrane protein secg; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca Phyre2 PDB 2l2t chain A Region: 7 - 27 Aligned: 21 Modelled: 21 Confidence: 10.0% Identity: 43% PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain Phyre2 PDB 2knc chain B Region: 4 - 41 Aligned: 38 Modelled: 38 Confidence: 9.7% Identity: 13% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2a93 chain B Region: 68 - 88 Aligned: 21 Modelled: 21 Confidence: 9.4% Identity: 29% PDB header:leucine zippers Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper; PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures Phyre2 PDB 2kl5 chain A Region: 140 - 152 Aligned: 13 Modelled: 13 Confidence: 9.2% Identity: 31% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yutd; PDBTitle: solution nmr structure of protein yutd from b.subtilis, northeast2 structural genomics consortium target sr232 Phyre2 PDB 1cz7 chain C Region: 27 - 111 Aligned: 73 Modelled: 85 Confidence: 8.2% Identity: 10% PDB header:contractile protein Chain: C: PDB Molecule:microtubule motor protein ncd; PDBTitle: the crystal structure of a minus-end directed microtubule2 motor protein ncd reveals variable dimer conformations Phyre2 PDB 3n27 chain A Region: 121 - 147 Aligned: 27 Modelled: 27 Confidence: 7.7% Identity: 19% PDB header:viral protein Chain: A: PDB Molecule:fusion glycoprotein f0, linker, fusion glycoprotein f0; PDBTitle: molecular basis of the inhibition of henipa viruses Phyre2 PDB 1w8x chain P Region: 2 - 22 Aligned: 21 Modelled: 21 Confidence: 7.0% Identity: 10% PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 Phyre2 PDB 1f8a chain B Region: 73 - 130 Aligned: 58 Modelled: 58 Confidence: 6.7% Identity: 12% PDB header:isomerase Chain: B: PDB Molecule:peptidyl-prolyl cis-trans isomerase nima- PDBTitle: structural basis for the phosphoserine-proline recognition2 by group iv ww domains Phyre2 PDB 1s0p chain A Region: 141 - 150 Aligned: 10 Modelled: 10 Confidence: 6.7% Identity: 40% Fold: N-terminal domain of adenylylcyclase associated protein, CAP Superfamily: N-terminal domain of adenylylcyclase associated protein, CAP Family: N-terminal domain of adenylylcyclase associated protein, CAP Phyre2 PDB 2aki chain A Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 6.5% Identity: 33% PDB header:protein transport Chain: A: PDB Molecule:protein-export membrane protein secg; PDBTitle: normal mode-based flexible fitted coordinates of a2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli Phyre2 1 c1n73A_ 2 c3ghgD_ 3 c1m1jA_ 4 c3m9bK_ 5 c1hf9B_ 6 c1pnbA_ 7 c3dinE_ 8 c2w6bA_ 9 c2c9lZ_ 10 c3dl8F_ 11 c2l2tA_ 12 c2kncB_ 13 c2a93B_ 14 c2kl5A_ 15 c1cz7C_ 16 c3n27A_ 17 c1w8xP_ 18 c1f8aB_ 19 d1s0pa_ 20 c2akiA_ 21 22 23 24 25

Detailed template information

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

1 c1n73A_ 66.6 26 PDB header:blood clotting Chain: A: PDB Molecule:fibrin alpha-1 chain; PDBTitle: fibrin d-dimer, lamprey complexed with the peptide ligand: gly-his-2 arg-pro-amide 2 c3ghgD_ 38.5 18 PDB header:blood clotting Chain: D: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of human fibrinogen 3 c1m1jA_ 31.8 26 PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha subunit; PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands 4 c3m9bK_ 25.6 29 PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa 5 c1hf9B_ 20.9 19 PDB header:atpase inhibitor Chain: B: PDB Molecule:atpase inhibitor (mitochondrial); PDBTitle: c-terminal coiled-coil domain from bovine if1 6 c1pnbA_ 14.8 29 PDB header:seed storage protein Chain: A: PDB Molecule:napin bnib; PDBTitle: structure of napin bnib, nmr, 10 structures 7 c3dinE_ 13.1 19 PDB header:membrane protein, protein transport Chain: E: PDB Molecule:preprotein translocase subunit secg; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase 8 c2w6bA_ 11.4 21 PDB header:signaling protein Chain: A: PDB Molecule:rho guanine nucleotide exchange factor 7; PDBTitle: crystal structure of the trimeric beta-pix coiled-coil2 domain 9 c2c9lZ_ 11.3 53 PDB header:viral protein Chain: Z: PDB Molecule:bzlf1 trans-activator protein; PDBTitle: structure of the epstein-barr virus zebra protein 10 c3dl8F_ 10.7 24 PDB header:protein transport Chain: F: PDB Molecule:protein-export membrane protein secg; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca 11 c2l2tA_ 10.0 43 PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain 12 c2kncB_ 9.7 13 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 13 c2a93B_ 9.4 29 PDB header:leucine zippers Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper; PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures 14 c2kl5A_ 9.2 31 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yutd; PDBTitle: solution nmr structure of protein yutd from b.subtilis, northeast2 structural genomics consortium target sr232 15 c1cz7C_ 8.2 10 PDB header:contractile protein Chain: C: PDB Molecule:microtubule motor protein ncd; PDBTitle: the crystal structure of a minus-end directed microtubule2 motor protein ncd reveals variable dimer conformations 16 c3n27A_ 7.7 19 PDB header:viral protein Chain: A: PDB Molecule:fusion glycoprotein f0, linker, fusion glycoprotein f0; PDBTitle: molecular basis of the inhibition of henipa viruses 17 c1w8xP_ 7.0 10 PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 18 c1f8aB_ 6.7 12 PDB header:isomerase Chain: B: PDB Molecule:peptidyl-prolyl cis-trans isomerase nima- PDBTitle: structural basis for the phosphoserine-proline recognition2 by group iv ww domains 19 d1s0pa_ 6.7 40 Fold:N-terminal domain of adenylylcyclase associated protein, CAP Superfamily:N-terminal domain of adenylylcyclase associated protein, CAP Family:N-terminal domain of adenylylcyclase associated protein, CAP 20 c2akiA_ 6.5 33 PDB header:protein transport Chain: A: PDB Molecule:protein-export membrane protein secg; PDBTitle: normal mode-based flexible fitted coordinates of a2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli 21 d2h9da1 not modelled 6.3 8 Fold:Chorismate mutase II Superfamily:Chorismate mutase II Family:Dimeric chorismate mutase 22 c1aa0A_ not modelled 6.2 40 PDB header:attachment protein Chain: A: PDB Molecule:fibritin; PDBTitle: fibritin deletion mutant e (bacteriophage t4) 23 c3h32A_ not modelled 6.1 23 PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of d-dimer from human fibrin complexed with gly-his-2 arg-pro-tyr-amide 24 c3mk7F_ not modelled 5.8 33 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 25 c3kltB_ not modelled 5.6 19 PDB header:structural protein Chain: B: PDB Molecule:vimentin; PDBTitle: crystal structure of a vimentin fragment

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