Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	L	P	V	K	I	R	R	D	W	H	Y	Y	A	F	A	I	G	L	I	F	I	L	N	G	V	V	G	L	L	G	F	E	A	K	G	W	Q	T	Y	A	V	G	L	V	T	W	V	I	S	F	W	L	A	G	L	I	I	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70
Sequence		R	R	D	E	E	T	E	N	A	Q
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 2knc chain A Region: 45 - 70 Aligned: 26 Modelled: 26 Confidence: 63.5% Identity: 27% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1dq3 chain A domain 3 Region: 49 - 58 Aligned: 10 Modelled: 10 Confidence: 26.6% Identity: 50% Fold: Homing endonuclease-like Superfamily: Homing endonucleases Family: Intein endonuclease Phyre2 PDB 1m45 chain B Region: 54 - 62 Aligned: 9 Modelled: 9 Confidence: 22.4% Identity: 56% PDB header:cell cycle protein Chain: B: PDB Molecule:iq2 motif from myo2p, a class v myosin; PDBTitle: crystal structure of mlc1p bound to iq2 of myo2p, a class v2 myosin Phyre2 PDB 1jb0 chain I Region: 11 - 23 Aligned: 13 Modelled: 13 Confidence: 17.1% Identity: 31% Fold: Single transmembrane helix Superfamily: Subunit VIII of photosystem I reaction centre, PsaI Family: Subunit VIII of photosystem I reaction centre, PsaI Phyre2 PDB 1n2d chain C Region: 54 - 62 Aligned: 9 Modelled: 9 Confidence: 15.0% Identity: 56% PDB header:cell cycle Chain: C: PDB Molecule:iq2 and iq3 motifs from myo2p, a class v myosin; PDBTitle: ternary complex of mlc1p bound to iq2 and iq3 of myo2p, a2 class v myosin Phyre2 PDB 2k1a chain A Region: 45 - 63 Aligned: 19 Modelled: 19 Confidence: 13.3% Identity: 32% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 2k9y chain B Region: 42 - 62 Aligned: 21 Modelled: 21 Confidence: 12.7% Identity: 38% PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 1vj1 chain A domain 1 Region: 37 - 43 Aligned: 7 Modelled: 7 Confidence: 12.5% Identity: 57% Fold: GroES-like Superfamily: GroES-like Family: Alcohol dehydrogenase-like, N-terminal domain Phyre2 PDB 2k9y chain A Region: 42 - 62 Aligned: 21 Modelled: 21 Confidence: 12.4% Identity: 38% PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 1bhb chain A Region: 8 - 38 Aligned: 26 Modelled: 26 Confidence: 9.6% Identity: 38% PDB header:photoreceptor Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: three-dimensional structure of (1-71) bacterioopsin2 solubilized in methanol-chloroform and sds micelles3 determined by 15n-1h heteronuclear nmr spectroscopy Phyre2 PDB 2rcr chain H domain 2 Region: 49 - 64 Aligned: 16 Modelled: 16 Confidence: 8.9% Identity: 56% Fold: Single transmembrane helix Superfamily: Photosystem II reaction centre subunit H, transmembrane region Family: Photosystem II reaction centre subunit H, transmembrane region Phyre2 PDB 2rlw chain A Region: 42 - 51 Aligned: 10 Modelled: 10 Confidence: 8.8% Identity: 70% PDB header:toxin Chain: A: PDB Molecule:plnf; PDBTitle: three-dimensional structure of the two peptides that2 constitute the two-peptide bacteriocin plantaracin ef Phyre2 PDB 2bs2 chain C domain 1 Region: 4 - 39 Aligned: 36 Modelled: 36 Confidence: 8.2% Identity: 19% Fold: Heme-binding four-helical bundle Superfamily: Fumarate reductase respiratory complex transmembrane subunits Family: Fumarate reductase respiratory complex cytochrome b subunit, FrdC Phyre2 PDB 2voy chain E Region: 16 - 29 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 57% PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 1mow chain G Region: 50 - 58 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 67% PDB header:hydrolase/dna Chain: G: PDB Molecule:chimera of homing endonuclease i-dmoi and dna endonuclease PDBTitle: e-drei Phyre2 PDB 2i5n chain H Region: 49 - 65 Aligned: 17 Modelled: 17 Confidence: 6.7% Identity: 24% PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique Phyre2 PDB 2ex5 chain B Region: 52 - 58 Aligned: 7 Modelled: 7 Confidence: 6.4% Identity: 43% PDB header:hydrolase/dna Chain: B: PDB Molecule:dna endonuclease i-ceui; PDBTitle: group i intron-encoded homing endonuclease i-ceui complexed2 with dna Phyre2 PDB 3mx7 chain A Region: 7 - 13 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 43% PDB header:apoptosis Chain: A: PDB Molecule:fas apoptotic inhibitory molecule 1; PDBTitle: crystal structure analysis of human faim-ntd Phyre2 PDB 1af5 chain A Region: 53 - 58 Aligned: 6 Modelled: 6 Confidence: 5.8% Identity: 50% Fold: Homing endonuclease-like Superfamily: Homing endonucleases Family: Group I mobile intron endonuclease Phyre2 PDB 1m5x chain A Region: 53 - 58 Aligned: 6 Modelled: 6 Confidence: 5.7% Identity: 33% Fold: Homing endonuclease-like Superfamily: Homing endonucleases Family: Group I mobile intron endonuclease Phyre2 1 c2kncA_ 2 d1dq3a3 3 c1m45B_ 4 d1jb0i_ 5 c1n2dC_ 6 c2k1aA_ 7 c2k9yB_ 8 d1vj1a1 9 c2k9yA_ 10 c1bhbA_ 11 d2rcrh2 12 c2rlwA_ 13 d2bs2c1 14 c2voyE_ 15 c1mowG_ 16 c2i5nH_ 17 c2ex5B_ 18 c3mx7A_ 19 d1af5a_ 20 d1m5xa_ 21 22 23 24

Detailed template information

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

1 c2kncA_ 63.5 27 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 2 d1dq3a3 26.6 50 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Intein endonuclease 3 c1m45B_ 22.4 56 PDB header:cell cycle protein Chain: B: PDB Molecule:iq2 motif from myo2p, a class v myosin; PDBTitle: crystal structure of mlc1p bound to iq2 of myo2p, a class v2 myosin 4 d1jb0i_ 17.1 31 Fold:Single transmembrane helix Superfamily:Subunit VIII of photosystem I reaction centre, PsaI Family:Subunit VIII of photosystem I reaction centre, PsaI 5 c1n2dC_ 15.0 56 PDB header:cell cycle Chain: C: PDB Molecule:iq2 and iq3 motifs from myo2p, a class v myosin; PDBTitle: ternary complex of mlc1p bound to iq2 and iq3 of myo2p, a2 class v myosin 6 c2k1aA_ 13.3 32 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 7 c2k9yB_ 12.7 38 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 8 d1vj1a1 12.5 57 Fold:GroES-like Superfamily:GroES-like Family:Alcohol dehydrogenase-like, N-terminal domain 9 c2k9yA_ 12.4 38 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 10 c1bhbA_ 9.6 38 PDB header:photoreceptor Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: three-dimensional structure of (1-71) bacterioopsin2 solubilized in methanol-chloroform and sds micelles3 determined by 15n-1h heteronuclear nmr spectroscopy 11 d2rcrh2 8.9 56 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 12 c2rlwA_ 8.8 70 PDB header:toxin Chain: A: PDB Molecule:plnf; PDBTitle: three-dimensional structure of the two peptides that2 constitute the two-peptide bacteriocin plantaracin ef 13 d2bs2c1 8.2 19 Fold:Heme-binding four-helical bundle Superfamily:Fumarate reductase respiratory complex transmembrane subunits Family:Fumarate reductase respiratory complex cytochrome b subunit, FrdC 14 c2voyE_ 8.1 57 PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 15 c1mowG_ 7.8 67 PDB header:hydrolase/dna Chain: G: PDB Molecule:chimera of homing endonuclease i-dmoi and dna endonuclease PDBTitle: e-drei 16 c2i5nH_ 6.7 24 PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique 17 c2ex5B_ 6.4 43 PDB header:hydrolase/dna Chain: B: PDB Molecule:dna endonuclease i-ceui; PDBTitle: group i intron-encoded homing endonuclease i-ceui complexed2 with dna 18 c3mx7A_ 6.3 43 PDB header:apoptosis Chain: A: PDB Molecule:fas apoptotic inhibitory molecule 1; PDBTitle: crystal structure analysis of human faim-ntd 19 d1af5a_ 5.8 50 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 20 d1m5xa_ 5.7 33 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 21 d1t9ia_ not modelled 5.6 50 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 22 d1p8kz2 not modelled 5.5 67 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 23 d1p8kz1 not modelled 5.5 50 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 24 d1mowa1 not modelled 5.0 50 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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