Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	S	R	V	T	E	A	L	S	K	V	K	G	S	M	G	S	H	E	R	H	A	L	P	G	V	I	G	D	D	L	L	R	F	G	K	L	P	L	C	L	F	I	C	I	I	L	T	A	V	T	V	V	T	T	A	H	H	T
Secondary structure
SS confidence
Disorder		?	?									?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	L	L	T	A	Q	R	E	Q	L	V	L	E	R	D	A	L	D	I	E	W	R	N	L	I	L	E	E	N	A	L	G	D	H	S	R	V	E	R	I	A	T	E	K	L	Q	M	Q	H	V	D	P	S	Q	E	N	I	V	V	Q
Secondary structure
SS confidence
Disorder																																?	?	?	?											?	?	?	?	?			?
Disorder confidence
		.
Sequence		K
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 1kdd chain C Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.8% Identity: 31% PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 1kdd chain A Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.4% Identity: 31% PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 1kdd chain F Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.4% Identity: 31% PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 1kd9 chain F Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.4% Identity: 31% PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 1kd9 chain C Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.4% Identity: 31% PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 1kd9 chain A Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 21.4% Identity: 31% PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 1u2u chain A Region: 66 - 91 Aligned: 26 Modelled: 26 Confidence: 21.3% Identity: 31% PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: nmr solution structure of a designed heterodimeric leucine2 zipper Phyre2 PDB 3mud chain A Region: 46 - 107 Aligned: 47 Modelled: 62 Confidence: 19.4% Identity: 15% PDB header:contractile protein Chain: A: PDB Molecule:dna repair protein xrcc4, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle Phyre2 PDB 1gyx chain A Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 15.3% Identity: 14% Fold: Tautomerase/MIF Superfamily: Tautomerase/MIF Family: 4-oxalocrotonate tautomerase-like Phyre2 PDB 1deb chain A Region: 67 - 108 Aligned: 40 Modelled: 42 Confidence: 14.8% Identity: 28% PDB header:structural protein Chain: A: PDB Molecule:adenomatous polyposis coli protein; PDBTitle: crystal structure of the n-terminal coiled coil domain from2 apc Phyre2 PDB 3q4f chain G Region: 55 - 89 Aligned: 35 Modelled: 35 Confidence: 9.9% Identity: 11% PDB header:dna binding protein/protein binding Chain: G: PDB Molecule:dna repair protein xrcc4; PDBTitle: crystal structure of xrcc4/xlf-cernunnos complex Phyre2 PDB 3m20 chain A Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 9.3% Identity: 19% PDB header:isomerase Chain: A: PDB Molecule:4-oxalocrotonate tautomerase, putative; PDBTitle: crystal structure of dmpi from archaeoglobus fulgidus determined to2 2.37 angstroms resolution Phyre2 PDB 2w6a chain B Region: 45 - 85 Aligned: 41 Modelled: 41 Confidence: 9.0% Identity: 17% PDB header:signaling protein Chain: B: PDB Molecule:arf gtpase-activating protein git1; PDBTitle: x-ray structure of the dimeric git1 coiled-coil domain Phyre2 PDB 2csb chain A domain 3 Region: 89 - 103 Aligned: 15 Modelled: 15 Confidence: 8.7% Identity: 40% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Topoisomerase V repeat domain Phyre2 PDB 2knc chain B Region: 14 - 71 Aligned: 55 Modelled: 58 Confidence: 8.2% Identity: 16% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2j5u chain B Region: 61 - 85 Aligned: 25 Modelled: 25 Confidence: 7.1% Identity: 24% PDB header:cell shape regulation Chain: B: PDB Molecule:mrec protein; PDBTitle: mrec lysteria monocytogenes Phyre2 PDB 1kd8 chain A Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 7.1% Identity: 28% PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l Phyre2 PDB 1kd8 chain F Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 7.1% Identity: 28% PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l Phyre2 PDB 1kd8 chain C Region: 61 - 89 Aligned: 29 Modelled: 29 Confidence: 7.1% Identity: 28% PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l Phyre2 PDB 2aze chain B domain 1 Region: 59 - 120 Aligned: 62 Modelled: 62 Confidence: 6.8% Identity: 18% Fold: E2F-DP heterodimerization region Superfamily: E2F-DP heterodimerization region Family: E2F dimerization segment Phyre2 1 c1kddC_ 2 c1kddA_ 3 c1kddF_ 4 c1kd9F_ 5 c1kd9C_ 6 c1kd9A_ 7 c1u2uA_ 8 c3mudA_ 9 d1gyxa_ 10 c1debA_ 11 c3q4fG_ 12 c3m20A_ 13 c2w6aB_ 14 d2csba3 15 c2kncB_ 16 c2j5uB_ 17 c1kd8A_ 18 c1kd8F_ 19 c1kd8C_ 20 d2azeb1 21 22 23 24 25 26 27

Detailed template information

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

1 c1kddC_ 21.8 31 PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 2 c1kddA_ 21.4 31 PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 3 c1kddF_ 21.4 31 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 4 c1kd9F_ 21.4 31 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 5 c1kd9C_ 21.4 31 PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 6 c1kd9A_ 21.4 31 PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 7 c1u2uA_ 21.3 31 PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: nmr solution structure of a designed heterodimeric leucine2 zipper 8 c3mudA_ 19.4 15 PDB header:contractile protein Chain: A: PDB Molecule:dna repair protein xrcc4, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle 9 d1gyxa_ 15.3 14 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 10 c1debA_ 14.8 28 PDB header:structural protein Chain: A: PDB Molecule:adenomatous polyposis coli protein; PDBTitle: crystal structure of the n-terminal coiled coil domain from2 apc 11 c3q4fG_ 9.9 11 PDB header:dna binding protein/protein binding Chain: G: PDB Molecule:dna repair protein xrcc4; PDBTitle: crystal structure of xrcc4/xlf-cernunnos complex 12 c3m20A_ 9.3 19 PDB header:isomerase Chain: A: PDB Molecule:4-oxalocrotonate tautomerase, putative; PDBTitle: crystal structure of dmpi from archaeoglobus fulgidus determined to2 2.37 angstroms resolution 13 c2w6aB_ 9.0 17 PDB header:signaling protein Chain: B: PDB Molecule:arf gtpase-activating protein git1; PDBTitle: x-ray structure of the dimeric git1 coiled-coil domain 14 d2csba3 8.7 40 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 15 c2kncB_ 8.2 16 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 16 c2j5uB_ 7.1 24 PDB header:cell shape regulation Chain: B: PDB Molecule:mrec protein; PDBTitle: mrec lysteria monocytogenes 17 c1kd8A_ 7.1 28 PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l 18 c1kd8F_ 7.1 28 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l 19 c1kd8C_ 7.1 28 PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l 20 d2azeb1 6.8 18 Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:E2F dimerization segment 21 c2jeeA_ not modelled 6.7 15 PDB header:cell cycle Chain: A: PDB Molecule:yiiu; PDBTitle: xray structure of e. coli yiiu 22 c3htkB_ not modelled 6.7 14 PDB header:recombination/replication/ligase Chain: B: PDB Molecule:structural maintenance of chromosomes protein 5; PDBTitle: crystal structure of mms21 and smc5 complex 23 c2gd7B_ not modelled 6.5 31 PDB header:transcription Chain: B: PDB Molecule:hexim1 protein; PDBTitle: the structure of the cyclin t-binding domain of hexim12 reveals the molecular basis for regulation of3 transcription elongation 24 c2voyB_ not modelled 6.4 16 PDB header:hydrolase Chain: B: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 25 d1b0nb_ not modelled 5.8 55 Fold:Dimerisation interlock Superfamily:SinR repressor dimerisation domain-like Family:SinR repressor dimerisation domain-like 26 c1b0nB_ not modelled 5.8 55 PDB header:transcription regulator Chain: B: PDB Molecule:protein (sini protein); PDBTitle: sinr protein/sini protein complex 27 c3o2iB_ not modelled 5.8 33 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: the crystal structure of a functionally unknown protein from2 leptospirillum sp. group ii uba

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