Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	E	H	G	A	L	A	T	L	K	D	L	A	E	K	E	V	E	D	A	A	R	L	L	G	E	M	R	R	G	C	Q	Q	A	E	E	Q	L	K	M	L	I	D	Y	Q	N	E	Y	R	N	N	L	N	S	D	M	S	A	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	T	S	N	R	W	I	N	Y	Q	Q	F	I	Q	T	L	E	K	A	I	T	Q	H	R	Q	Q	L	N	Q	W	T	Q	K	V	D	I	A	L	N	S	W	R	E	K	K	Q	R	L	Q	A	W	Q	T	L	Q	E	R	Q	S	T
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.
Sequence		A	A	L	L	A	E	N	R	L	D	Q	K	K	M	D	E	F	A	Q	R	A	A	M	R	K	P	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 3ajw chain A Region: 3 - 138 Aligned: 134 Modelled: 136 Confidence: 99.6% Identity: 87% PDB header:protein transport Chain: A: PDB Molecule:flagellar flij protein; PDBTitle: structure of flij, a soluble component of flagellar type iii export2 apparatus Phyre2 PDB 3k29 chain A Region: 5 - 143 Aligned: 139 Modelled: 139 Confidence: 92.3% Identity: 19% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: structure of a putative ysco homolog ct670 from chlamydia trachomatis Phyre2 PDB 3u59 chain C Region: 11 - 113 Aligned: 97 Modelled: 103 Confidence: 80.2% Identity: 12% PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta Phyre2 PDB 2fxm chain B Region: 6 - 113 Aligned: 108 Modelled: 108 Confidence: 77.3% Identity: 9% PDB header:contractile protein Chain: B: PDB Molecule:myosin heavy chain, cardiac muscle beta isoform; PDBTitle: structure of the human beta-myosin s2 fragment Phyre2 PDB 1deq chain F Region: 5 - 115 Aligned: 109 Modelled: 111 Confidence: 74.3% Identity: 10% PDB header: PDB COMPND: Phyre2 PDB 3oja chain B Region: 5 - 139 Aligned: 135 Modelled: 135 Confidence: 66.9% Identity: 9% PDB header:protein binding Chain: B: PDB Molecule:anopheles plasmodium-responsive leucine-rich repeat protein PDBTitle: crystal structure of lrim1/apl1c complex Phyre2 PDB 2d3e chain D Region: 11 - 135 Aligned: 125 Modelled: 125 Confidence: 65.8% Identity: 13% PDB header:contractile protein Chain: D: PDB Molecule:general control protein gcn4 and tropomyosin 1 PDBTitle: crystal structure of the c-terminal fragment of rabbit2 skeletal alpha-tropomyosin Phyre2 PDB 3ol1 chain A Region: 12 - 109 Aligned: 98 Modelled: 98 Confidence: 46.3% Identity: 16% PDB header:structural protein Chain: A: PDB Molecule:vimentin; PDBTitle: crystal structure of vimentin (fragment 144-251) from homo sapiens,2 northeast structural genomics consortium target hr4796b Phyre2 PDB 2y3a chain B Region: 5 - 121 Aligned: 117 Modelled: 117 Confidence: 41.3% Identity: 7% PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit beta; PDBTitle: crystal structure of p110beta in complex with icsh2 of p85beta and2 the drug gdc-0941 Phyre2 PDB 1l8d chain B Region: 7 - 109 Aligned: 102 Modelled: 103 Confidence: 33.4% Identity: 8% PDB header:replication Chain: B: PDB Molecule:dna double-strand break repair rad50 atpase; PDBTitle: rad50 coiled-coil zn hook Phyre2 PDB 4a55 chain B Region: 7 - 130 Aligned: 124 Modelled: 124 Confidence: 33.1% Identity: 5% PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108 Phyre2 PDB 2b9c chain A Region: 2 - 129 Aligned: 122 Modelled: 128 Confidence: 29.2% Identity: 11% PDB header:contractile protein Chain: A: PDB Molecule:striated-muscle alpha tropomyosin; PDBTitle: structure of tropomyosin's mid-region: bending and binding2 sites for actin Phyre2 PDB 3ipk chain A Region: 7 - 112 Aligned: 101 Modelled: 101 Confidence: 26.2% Identity: 7% PDB header:cell adhesion Chain: A: PDB Molecule:agi/ii; PDBTitle: crystal structure of a3vp1 of agi/ii of streptococcus mutans Phyre2 PDB 1y4c chain A Region: 14 - 138 Aligned: 125 Modelled: 125 Confidence: 26.0% Identity: 11% PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp Phyre2 PDB 2gl2 chain B Region: 16 - 121 Aligned: 100 Modelled: 106 Confidence: 20.3% Identity: 7% PDB header:cell adhesion Chain: B: PDB Molecule:adhesion a; PDBTitle: crystal structure of the tetra muntant (t66g,r67g,f68g,2 y69g) of bacterial adhesin fada Phyre2 PDB 2rd0 chain B Region: 7 - 117 Aligned: 111 Modelled: 111 Confidence: 13.1% Identity: 6% PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: structure of a human p110alpha/p85alpha complex Phyre2 PDB 3o0z chain D Region: 6 - 138 Aligned: 127 Modelled: 133 Confidence: 11.2% Identity: 12% PDB header:transferase Chain: D: PDB Molecule:rho-associated protein kinase 1; PDBTitle: crystal structure of a coiled-coil domain from human rock i Phyre2 PDB 1ei3 chain E Region: 7 - 101 Aligned: 94 Modelled: 95 Confidence: 11.1% Identity: 10% PDB header: PDB COMPND: Phyre2 PDB 1deq chain O Region: 7 - 90 Aligned: 84 Modelled: 84 Confidence: 9.7% Identity: 11% PDB header: PDB COMPND: Phyre2 PDB 1deq chain D Region: 12 - 95 Aligned: 78 Modelled: 84 Confidence: 9.5% Identity: 9% PDB header: PDB COMPND: Phyre2 1 c3ajwA_ 2 c3k29A_ 3 c3u59C_ 4 c2fxmB_ 5 c1deqF_ 6 c3ojaB_ 7 c2d3eD_ 8 c3ol1A_ 9 c2y3aB_ 10 c1l8dB_ 11 c4a55B_ 12 c2b9cA_ 13 c3ipkA_ 14 c1y4cA_ 15 c2gl2B_ 16 c2rd0B_ 17 c3o0zD_ 18 c1ei3E_ 19 c1deqO_ 20 c1deqD_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 c3ajwA_ 99.6 87 PDB header:protein transport Chain: A: PDB Molecule:flagellar flij protein; PDBTitle: structure of flij, a soluble component of flagellar type iii export2 apparatus 2 c3k29A_ 92.3 19 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: structure of a putative ysco homolog ct670 from chlamydia trachomatis 3 c3u59C_ 80.2 12 PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta 4 c2fxmB_ 77.3 9 PDB header:contractile protein Chain: B: PDB Molecule:myosin heavy chain, cardiac muscle beta isoform; PDBTitle: structure of the human beta-myosin s2 fragment 5 c1deqF_ 74.3 10 PDB header: PDB COMPND: 6 c3ojaB_ 66.9 9 PDB header:protein binding Chain: B: PDB Molecule:anopheles plasmodium-responsive leucine-rich repeat protein PDBTitle: crystal structure of lrim1/apl1c complex 7 c2d3eD_ 65.8 13 PDB header:contractile protein Chain: D: PDB Molecule:general control protein gcn4 and tropomyosin 1 PDBTitle: crystal structure of the c-terminal fragment of rabbit2 skeletal alpha-tropomyosin 8 c3ol1A_ 46.3 16 PDB header:structural protein Chain: A: PDB Molecule:vimentin; PDBTitle: crystal structure of vimentin (fragment 144-251) from homo sapiens,2 northeast structural genomics consortium target hr4796b 9 c2y3aB_ 41.3 7 PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit beta; PDBTitle: crystal structure of p110beta in complex with icsh2 of p85beta and2 the drug gdc-0941 10 c1l8dB_ 33.4 8 PDB header:replication Chain: B: PDB Molecule:dna double-strand break repair rad50 atpase; PDBTitle: rad50 coiled-coil zn hook 11 c4a55B_ 33.1 5 PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108 12 c2b9cA_ 29.2 11 PDB header:contractile protein Chain: A: PDB Molecule:striated-muscle alpha tropomyosin; PDBTitle: structure of tropomyosin's mid-region: bending and binding2 sites for actin 13 c3ipkA_ 26.2 7 PDB header:cell adhesion Chain: A: PDB Molecule:agi/ii; PDBTitle: crystal structure of a3vp1 of agi/ii of streptococcus mutans 14 c1y4cA_ 26.0 11 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 15 c2gl2B_ 20.3 7 PDB header:cell adhesion Chain: B: PDB Molecule:adhesion a; PDBTitle: crystal structure of the tetra muntant (t66g,r67g,f68g,2 y69g) of bacterial adhesin fada 16 c2rd0B_ 13.1 6 PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: structure of a human p110alpha/p85alpha complex 17 c3o0zD_ 11.2 12 PDB header:transferase Chain: D: PDB Molecule:rho-associated protein kinase 1; PDBTitle: crystal structure of a coiled-coil domain from human rock i 18 c1ei3E_ 11.1 10 PDB header: PDB COMPND: 19 c1deqO_ 9.7 11 PDB header: PDB COMPND: 20 c1deqD_ 9.5 9 PDB header: PDB COMPND: 21 c2efrB_ not modelled 9.4 18 PDB header:contractile protein Chain: B: PDB Molecule:general control protein gcn4 and tropomyosin 1 alpha chain; PDBTitle: crystal structure of the c-terminal tropomyosin fragment with n- and2 c-terminal extensions of the leucine zipper at 1.8 angstroms3 resolution 22 c3ghgK_ not modelled 8.7 9 PDB header:blood clotting Chain: K: PDB Molecule:fibrinogen beta chain; PDBTitle: crystal structure of human fibrinogen 23 c3hizB_ not modelled 8.3 6 PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha 24 c3dtpA_ not modelled 8.1 10 PDB header:contractile protein Chain: A: PDB Molecule:myosin 2 heavy chain chimera of smooth and PDBTitle: tarantula heavy meromyosin obtained by flexible docking to2 tarantula muscle thick filament cryo-em 3d-map 25 c1jchC_ not modelled 7.9 12 PDB header:ribosome inhibitor, hydrolase Chain: C: PDB Molecule:colicin e3; PDBTitle: crystal structure of colicin e3 in complex with its immunity protein 26 c1gk4A_ not modelled 7.0 18 PDB header:vimentin Chain: A: PDB Molecule:vimentin; PDBTitle: human vimentin coil 2b fragment (cys2) 27 c1gk6B_ not modelled 6.2 12 PDB header:vimentin Chain: B: PDB Molecule:vimentin; PDBTitle: human vimentin coil 2b fragment linked to gcn4 leucine2 zipper (z2b) 28 c2v71A_ not modelled 5.8 10 PDB header:nuclear protein Chain: A: PDB Molecule:nuclear distribution protein nude-like 1; PDBTitle: coiled-coil region of nudel 29 c1g6uB_ not modelled 5.6 15 PDB header:de novo protein Chain: B: PDB Molecule:domain swapped dimer; PDBTitle: crystal structure of a domain swapped dimer

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