Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50
Sequence		M	K	Q	H	K	A	M	I	V	A	L	I	V	I	C	I	T	A	V	V	A	A	L	V	T	R	K	D	L	C	E	V	H	I	R	T	G	Q	T	E	V	A	V	F	T	A	Y	E	S	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 1zll chain E Region: 7 - 19 Aligned: 13 Modelled: 13 Confidence: 20.3% Identity: 31% PDB header:membrane protein/signaling protein Chain: E: PDB Molecule:cardiac phospholamban; PDBTitle: nmr structure of unphosphorylated human phospholamban2 pentamer Phyre2 PDB 3arc chain L Region: 7 - 22 Aligned: 16 Modelled: 16 Confidence: 18.2% Identity: 19% PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 2wj8 chain N Region: 9 - 22 Aligned: 14 Modelled: 14 Confidence: 17.0% Identity: 36% PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein Phyre2 PDB 1y4o chain A domain 1 Region: 3 - 41 Aligned: 39 Modelled: 39 Confidence: 11.8% Identity: 18% Fold: Profilin-like Superfamily: Roadblock/LC7 domain Family: Roadblock/LC7 domain Phyre2 PDB 2hz5 chain A domain 1 Region: 3 - 41 Aligned: 39 Modelled: 39 Confidence: 9.7% Identity: 18% Fold: Profilin-like Superfamily: Roadblock/LC7 domain Family: Roadblock/LC7 domain Phyre2 PDB 1prt chain C domain 1 Region: 28 - 43 Aligned: 16 Modelled: 16 Confidence: 8.5% Identity: 38% Fold: OB-fold Superfamily: Bacterial enterotoxins Family: Bacterial AB5 toxins, B-subunits Phyre2 PDB 1xme chain C domain 1 Region: 2 - 21 Aligned: 20 Modelled: 20 Confidence: 8.0% Identity: 20% Fold: Single transmembrane helix Superfamily: Bacterial ba3 type cytochrome c oxidase subunit IIa Family: Bacterial ba3 type cytochrome c oxidase subunit IIa Phyre2 PDB 2k4f chain A Region: 34 - 41 Aligned: 8 Modelled: 8 Confidence: 6.3% Identity: 50% PDB header:immune system, signaling protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 epsilon chain; PDBTitle: mouse cd3epsilon cytoplasmic tail Phyre2 PDB 1prt chain B domain 1 Region: 25 - 43 Aligned: 19 Modelled: 19 Confidence: 6.0% Identity: 37% Fold: OB-fold Superfamily: Bacterial enterotoxins Family: Bacterial AB5 toxins, B-subunits Phyre2 PDB 1h9r chain A domain 1 Region: 24 - 46 Aligned: 23 Modelled: 23 Confidence: 5.4% Identity: 13% Fold: OB-fold Superfamily: MOP-like Family: BiMOP, duplicated molybdate-binding domain Phyre2 PDB 2km6 chain A Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 5.4% Identity: 19% PDB header:signaling protein, protein binding Chain: A: PDB Molecule:nacht, lrr and pyd domains-containing protein 7; PDBTitle: nmr structure of the nlrp7 pyrin domain Phyre2 PDB 1h9m chain A domain 2 Region: 24 - 48 Aligned: 25 Modelled: 25 Confidence: 5.3% Identity: 28% Fold: OB-fold Superfamily: MOP-like Family: BiMOP, duplicated molybdate-binding domain Phyre2 PDB 1pn5 chain A Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 5.0% Identity: 13% PDB header:apoptosis Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 2; PDBTitle: nmr structure of the nalp1 pyrin domain (pyd) Phyre2 1 c1zllE_ 2 c3arcl_ 3 c2wj8N_ 4 d1y4oa1 5 d2hz5a1 6 d1prtc1 7 d1xmec1 8 c2k4fA_ 9 d1prtb1 10 d1h9ra1 11 c2km6A_ 12 d1h9ma2 13 c1pn5A_

Detailed template information

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

1 c1zllE_ 20.3 31 PDB header:membrane protein/signaling protein Chain: E: PDB Molecule:cardiac phospholamban; PDBTitle: nmr structure of unphosphorylated human phospholamban2 pentamer 2 c3arcl_ 18.2 19 PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 3 c2wj8N_ 17.0 36 PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein 4 d1y4oa1 11.8 18 Fold:Profilin-like Superfamily:Roadblock/LC7 domain Family:Roadblock/LC7 domain 5 d2hz5a1 9.7 18 Fold:Profilin-like Superfamily:Roadblock/LC7 domain Family:Roadblock/LC7 domain 6 d1prtc1 8.5 38 Fold:OB-fold Superfamily:Bacterial enterotoxins Family:Bacterial AB5 toxins, B-subunits 7 d1xmec1 8.0 20 Fold:Single transmembrane helix Superfamily:Bacterial ba3 type cytochrome c oxidase subunit IIa Family:Bacterial ba3 type cytochrome c oxidase subunit IIa 8 c2k4fA_ 6.3 50 PDB header:immune system, signaling protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 epsilon chain; PDBTitle: mouse cd3epsilon cytoplasmic tail 9 d1prtb1 6.0 37 Fold:OB-fold Superfamily:Bacterial enterotoxins Family:Bacterial AB5 toxins, B-subunits 10 d1h9ra1 5.4 13 Fold:OB-fold Superfamily:MOP-like Family:BiMOP, duplicated molybdate-binding domain 11 c2km6A_ 5.4 19 PDB header:signaling protein, protein binding Chain: A: PDB Molecule:nacht, lrr and pyd domains-containing protein 7; PDBTitle: nmr structure of the nlrp7 pyrin domain 12 d1h9ma2 5.3 28 Fold:OB-fold Superfamily:MOP-like Family:BiMOP, duplicated molybdate-binding domain 13 c1pn5A_ 5.0 13 PDB header:apoptosis Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 2; PDBTitle: nmr structure of the nalp1 pyrin domain (pyd)

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