Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Y	R	I	A	L	A	V	S	L	F	A	L	S	A	G	S	Y	A	T	T	L	C	Q	E	K	E	Q	N	I	L	K	E	I	S	Y	A	E	K	H	Q	N	Q	N	R	I	D	G	L	N	K	A	L	S	E	V	R	A	N
Secondary structure
SS confidence
Disorder		?	?	?											?	?	?	?	?	?	?	?	?	?																		?	?	?																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	S	D	S	Q	L	R	A	D	H	Q	K	K	I	A	K	Q	K	D	E	V	A	E	R	Q	Q	D	L	A	E	A	K	Q	K	G	D	A	D	K	I	A	K	R	E	R	K	L	A	E	A	Q	E	E	L	K	K	L	E	A	R
Secondary structure
SS confidence
Disorder			?	?																															?	?	?																							?	?
Disorder confidence
		.	.
Sequence		D	Y
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 1y4c chain A Region: 4 - 118 Aligned: 112 Modelled: 115 Confidence: 69.4% 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 3u59 chain C Region: 26 - 120 Aligned: 95 Modelled: 95 Confidence: 67.5% Identity: 18% PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta Phyre2 PDB 1k4t chain A domain 1 Region: 71 - 120 Aligned: 50 Modelled: 50 Confidence: 37.6% Identity: 28% Fold: Long alpha-hairpin Superfamily: Eukaryotic DNA topoisomerase I, dispensable insert domain Family: Eukaryotic DNA topoisomerase I, dispensable insert domain Phyre2 PDB 2k48 chain A Region: 54 - 117 Aligned: 64 Modelled: 64 Confidence: 31.1% Identity: 20% PDB header:viral protein Chain: A: PDB Molecule:nucleoprotein; PDBTitle: nmr structure of the n-terminal coiled coil domain of the2 andes hantavirus nucleocapsid protein Phyre2 PDB 2ic6 chain B Region: 54 - 117 Aligned: 64 Modelled: 64 Confidence: 22.3% Identity: 23% PDB header:viral protein Chain: B: PDB Molecule:nucleocapsid protein; PDBTitle: the coiled-coil domain (residues 1-75) structure of the sin2 nombre virus nucleocapsid protein Phyre2 PDB 1d7m chain A Region: 44 - 116 Aligned: 62 Modelled: 73 Confidence: 19.3% Identity: 26% PDB header:contractile protein Chain: A: PDB Molecule:cortexillin i; PDBTitle: coiled-coil dimerization domain from cortexillin i Phyre2 PDB 2khk chain A Region: 67 - 106 Aligned: 39 Modelled: 40 Confidence: 17.9% Identity: 23% PDB header:transport protein Chain: A: PDB Molecule:atp synthase subunit b; PDBTitle: nmr solution structure of the b30-82 domain of subunit b of2 escherichia coli f1fo atp synthase Phyre2 PDB 3ghg chain K Region: 22 - 120 Aligned: 93 Modelled: 99 Confidence: 17.5% Identity: 10% PDB header:blood clotting Chain: K: PDB Molecule:fibrinogen beta chain; PDBTitle: crystal structure of human fibrinogen Phyre2 PDB 3ipk chain A Region: 25 - 119 Aligned: 94 Modelled: 95 Confidence: 16.4% Identity: 17% PDB header:cell adhesion Chain: A: PDB Molecule:agi/ii; PDBTitle: crystal structure of a3vp1 of agi/ii of streptococcus mutans Phyre2 PDB 3hnw chain B Region: 9 - 91 Aligned: 77 Modelled: 83 Confidence: 15.3% Identity: 6% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a basic coiled-coil protein of unknown function2 from eubacterium eligens atcc 27750 Phyre2 PDB 3err chain B Region: 71 - 122 Aligned: 51 Modelled: 52 Confidence: 14.9% Identity: 18% PDB header:ligase Chain: B: PDB Molecule:fusion protein of microtubule binding domain from PDBTitle: microtubule binding domain from mouse cytoplasmic dynein as2 a fusion with seryl-trna synthetase Phyre2 PDB 2fxm chain B Region: 25 - 120 Aligned: 96 Modelled: 96 Confidence: 14.0% Identity: 14% 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 2qdq chain A Region: 91 - 118 Aligned: 28 Modelled: 28 Confidence: 9.9% Identity: 25% PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: crystal structure of the talin dimerisation domain Phyre2 PDB 1zxa chain B Region: 95 - 118 Aligned: 24 Modelled: 24 Confidence: 8.7% Identity: 29% PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia Phyre2 PDB 1vp7 chain A Region: 67 - 117 Aligned: 51 Modelled: 51 Confidence: 7.2% Identity: 12% Fold: Spectrin repeat-like Superfamily: XseB-like Family: XseB-like Phyre2 PDB 1r48 chain A Region: 104 - 120 Aligned: 17 Modelled: 17 Confidence: 6.8% Identity: 29% PDB header:transport protein Chain: A: PDB Molecule:proline/betaine transporter; PDBTitle: solution structure of the c-terminal cytoplasmic domain2 residues 468-497 of escherichia coli protein prop Phyre2 PDB 2gl2 chain B Region: 21 - 120 Aligned: 94 Modelled: 100 Confidence: 6.8% Identity: 12% 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 3l8r chain A Region: 83 - 117 Aligned: 35 Modelled: 35 Confidence: 6.0% Identity: 29% PDB header:transferase Chain: A: PDB Molecule:putative pts system, cellobiose-specific iia PDBTitle: the crystal structure of ptca from s. mutans Phyre2 PDB 1wcr chain A Region: 83 - 117 Aligned: 35 Modelled: 35 Confidence: 5.7% Identity: 9% PDB header:transferase Chain: A: PDB Molecule:pts system, n, n'-diacetylchitobiose-specific PDBTitle: trimeric structure of the enzyme iia from escherichia coli2 phosphotransferase system specific for n,n'-3 diacetylchitobiose Phyre2 PDB 2d3e chain D Region: 25 - 120 Aligned: 96 Modelled: 96 Confidence: 5.5% Identity: 18% 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 1 c1y4cA_ 2 c3u59C_ 3 d1k4ta1 4 c2k48A_ 5 c2ic6B_ 6 c1d7mA_ 7 c2khkA_ 8 c3ghgK_ 9 c3ipkA_ 10 c3hnwB_ 11 c3errB_ 12 c2fxmB_ 13 c2qdqA_ 14 c1zxaB_ 15 d1vp7a_ 16 c1r48A_ 17 c2gl2B_ 18 c3l8rA_ 19 c1wcrA_ 20 c2d3eD_ 21 22

Detailed template information

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

1 c1y4cA_ 69.4 11 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 2 c3u59C_ 67.5 18 PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta 3 d1k4ta1 37.6 28 Fold:Long alpha-hairpin Superfamily:Eukaryotic DNA topoisomerase I, dispensable insert domain Family:Eukaryotic DNA topoisomerase I, dispensable insert domain 4 c2k48A_ 31.1 20 PDB header:viral protein Chain: A: PDB Molecule:nucleoprotein; PDBTitle: nmr structure of the n-terminal coiled coil domain of the2 andes hantavirus nucleocapsid protein 5 c2ic6B_ 22.3 23 PDB header:viral protein Chain: B: PDB Molecule:nucleocapsid protein; PDBTitle: the coiled-coil domain (residues 1-75) structure of the sin2 nombre virus nucleocapsid protein 6 c1d7mA_ 19.3 26 PDB header:contractile protein Chain: A: PDB Molecule:cortexillin i; PDBTitle: coiled-coil dimerization domain from cortexillin i 7 c2khkA_ 17.9 23 PDB header:transport protein Chain: A: PDB Molecule:atp synthase subunit b; PDBTitle: nmr solution structure of the b30-82 domain of subunit b of2 escherichia coli f1fo atp synthase 8 c3ghgK_ 17.5 10 PDB header:blood clotting Chain: K: PDB Molecule:fibrinogen beta chain; PDBTitle: crystal structure of human fibrinogen 9 c3ipkA_ 16.4 17 PDB header:cell adhesion Chain: A: PDB Molecule:agi/ii; PDBTitle: crystal structure of a3vp1 of agi/ii of streptococcus mutans 10 c3hnwB_ 15.3 6 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a basic coiled-coil protein of unknown function2 from eubacterium eligens atcc 27750 11 c3errB_ 14.9 18 PDB header:ligase Chain: B: PDB Molecule:fusion protein of microtubule binding domain from PDBTitle: microtubule binding domain from mouse cytoplasmic dynein as2 a fusion with seryl-trna synthetase 12 c2fxmB_ 14.0 14 PDB header:contractile protein Chain: B: PDB Molecule:myosin heavy chain, cardiac muscle beta isoform; PDBTitle: structure of the human beta-myosin s2 fragment 13 c2qdqA_ 9.9 25 PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: crystal structure of the talin dimerisation domain 14 c1zxaB_ 8.7 29 PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia 15 d1vp7a_ 7.2 12 Fold:Spectrin repeat-like Superfamily:XseB-like Family:XseB-like 16 c1r48A_ 6.8 29 PDB header:transport protein Chain: A: PDB Molecule:proline/betaine transporter; PDBTitle: solution structure of the c-terminal cytoplasmic domain2 residues 468-497 of escherichia coli protein prop 17 c2gl2B_ 6.8 12 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 18 c3l8rA_ 6.0 29 PDB header:transferase Chain: A: PDB Molecule:putative pts system, cellobiose-specific iia PDBTitle: the crystal structure of ptca from s. mutans 19 c1wcrA_ 5.7 9 PDB header:transferase Chain: A: PDB Molecule:pts system, n, n'-diacetylchitobiose-specific PDBTitle: trimeric structure of the enzyme iia from escherichia coli2 phosphotransferase system specific for n,n'-3 diacetylchitobiose 20 c2d3eD_ 5.5 18 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 21 c1deqD_ not modelled 5.4 15 PDB header: PDB COMPND: 22 c3k1sE_ not modelled 5.2 20 PDB header:transferase Chain: E: PDB Molecule:pts system, cellobiose-specific iia component; PDBTitle: crystal structure of the pts cellobiose specific enzyme iia2 from bacillus anthracis

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