Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	T	V	L	S	R	M	A	M	Q	L	K	K	T	A	W	I	I	P	V	F	M	V	S	G	C	S	L	S	P	A	I	P	V	I	G	A	Y	Y	P	S	W	F	F	C	A	I	A	S	L	I	L	T	L	I	T	R	R	V
Secondary structure
SS confidence
Disorder		?	?																						?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.
Sequence		I	Q	R	A	N	I	N	L	A	F	V	G	I	I	Y	T	A	L	F	A	L	Y	A	M	L	F	W	L	A	F	F
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 3kdp chain D Region: 60 - 91 Aligned: 32 Modelled: 32 Confidence: 35.5% Identity: 19% PDB header:hydrolase Chain: D: PDB Molecule:sodium/potassium-transporting atpase subunit beta-1; PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 2z8t chain X Region: 23 - 32 Aligned: 10 Modelled: 10 Confidence: 21.5% Identity: 70% PDB header:hydrolase Chain: X: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of protein-glutaminase of c.proteolyticum2 strain 9670 Phyre2 PDB 8i1b chain A Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 20.0% Identity: 33% Fold: beta-Trefoil Superfamily: Cytokine Family: Interleukin-1 (IL-1) Phyre2 PDB 1ilr chain 1 Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 19.9% Identity: 56% Fold: beta-Trefoil Superfamily: Cytokine Family: Interleukin-1 (IL-1) Phyre2 PDB 3a56 chain B Region: 23 - 32 Aligned: 10 Modelled: 10 Confidence: 19.6% Identity: 70% PDB header:hydrolase Chain: B: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of pro- protein-glutaminase Phyre2 PDB 2wry chain A Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 19.5% Identity: 56% PDB header:immune system Chain: A: PDB Molecule:interleukin-1beta; PDBTitle: crystal structure of chicken cytokine interleukin 1 beta Phyre2 PDB 2ila chain A Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 19.0% Identity: 22% Fold: beta-Trefoil Superfamily: Cytokine Family: Interleukin-1 (IL-1) Phyre2 PDB 1l2h chain A Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 18.2% Identity: 22% Fold: beta-Trefoil Superfamily: Cytokine Family: Interleukin-1 (IL-1) Phyre2 PDB 1cn3 chain F Region: 41 - 53 Aligned: 13 Modelled: 13 Confidence: 17.1% Identity: 31% PDB header:viral protein Chain: F: PDB Molecule:fragment of coat protein vp2; PDBTitle: interaction of polyomavirus internal protein vp2 with major2 capsid protein vp1 and implications for participation of3 vp2 in viral entry Phyre2 PDB 1md6 chain A Region: 38 - 46 Aligned: 9 Modelled: 9 Confidence: 16.5% Identity: 67% Fold: beta-Trefoil Superfamily: Cytokine Family: Interleukin-1 (IL-1) Phyre2 PDB 1afo chain B Region: 45 - 57 Aligned: 13 Modelled: 13 Confidence: 13.0% Identity: 31% PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures Phyre2 PDB 1kve chain A Region: 24 - 55 Aligned: 29 Modelled: 32 Confidence: 12.1% Identity: 24% PDB header:toxin Chain: A: PDB Molecule:smk toxin; PDBTitle: killer toxin from halotolerant yeast Phyre2 PDB 3bz1 chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 16% PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii protein y; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer Phyre2 PDB 3a0b chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 16% PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0h chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 16% PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3a0h chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 16% PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3dee chain A Region: 18 - 44 Aligned: 27 Modelled: 27 Confidence: 7.5% Identity: 11% PDB header:transcription Chain: A: PDB Molecule:putative regulatory protein; PDBTitle: crystal structure of a putative regulatory protein involved in2 transcription (ngo1945) from neisseria gonorrhoeae fa 1090 at 2.25 a3 resolution Phyre2 PDB 3arc chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.3% Identity: 16% PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 3arc chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.3% Identity: 16% PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 3a0b chain Y Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 7.3% Identity: 16% PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 1 c3kdpD_ 2 c2z8tX_ 3 d8i1ba_ 4 d1ilr1_ 5 c3a56B_ 6 c2wryA_ 7 d2ilaa_ 8 d1l2ha_ 9 c1cn3F_ 10 d1md6a_ 11 c1afoB_ 12 c1kveA_ 13 c3bz1y_ 14 c3a0by_ 15 c3a0hy_ 16 c3a0hY_ 17 c3deeA_ 18 c3arcy_ 19 c3arcY_ 20 c3a0bY_ 21

Detailed template information

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

1 c3kdpD_ 35.5 19 PDB header:hydrolase Chain: D: PDB Molecule:sodium/potassium-transporting atpase subunit beta-1; PDBTitle: crystal structure of the sodium-potassium pump 2 c2z8tX_ 21.5 70 PDB header:hydrolase Chain: X: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of protein-glutaminase of c.proteolyticum2 strain 9670 3 d8i1ba_ 20.0 33 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 4 d1ilr1_ 19.9 56 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 5 c3a56B_ 19.6 70 PDB header:hydrolase Chain: B: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of pro- protein-glutaminase 6 c2wryA_ 19.5 56 PDB header:immune system Chain: A: PDB Molecule:interleukin-1beta; PDBTitle: crystal structure of chicken cytokine interleukin 1 beta 7 d2ilaa_ 19.0 22 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 8 d1l2ha_ 18.2 22 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 9 c1cn3F_ 17.1 31 PDB header:viral protein Chain: F: PDB Molecule:fragment of coat protein vp2; PDBTitle: interaction of polyomavirus internal protein vp2 with major2 capsid protein vp1 and implications for participation of3 vp2 in viral entry 10 d1md6a_ 16.5 67 Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1) 11 c1afoB_ 13.0 31 PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures 12 c1kveA_ 12.1 24 PDB header:toxin Chain: A: PDB Molecule:smk toxin; PDBTitle: killer toxin from halotolerant yeast 13 c3bz1y_ 7.7 16 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii protein y; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer 14 c3a0by_ 7.7 16 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex 15 c3a0hy_ 7.7 16 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex 16 c3a0hY_ 7.7 16 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex 17 c3deeA_ 7.5 11 PDB header:transcription Chain: A: PDB Molecule:putative regulatory protein; PDBTitle: crystal structure of a putative regulatory protein involved in2 transcription (ngo1945) from neisseria gonorrhoeae fa 1090 at 2.25 a3 resolution 18 c3arcy_ 7.3 16 PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 19 c3arcY_ 7.3 16 PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 20 c3a0bY_ 7.3 16 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex 21 c1w2wA_ not modelled 7.3 36 PDB header:isomerase Chain: A: PDB Molecule:5-methylthioribose-1-phosphate isomerase; PDBTitle: crystal structure of yeast ypr118w, a methylthioribose-1-2 phosphate isomerase related to regulatory eif2b subunits

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