Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	E	Y	M	N	D	G	S	L	S	E	K	W	K	Y	R	F	N	F	Y	D	Q	H	G	F	P	G	F	W	G	A	T	P	E	Y	K	A	A	F	K	A	L	K	V	R	Q	R	L	T	I	Q	M	N	F	I	A	F	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?																									?	?	?					?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	S	W	I	Y	L	F	V	L	G	L	W	K	K	A	I	I	V	L	L	L	G	I	L	S	L	F	V	G	A	L	I	G	V	N	I	L	G	I	A	V	A	A	Y	V	A	V	N	T	N	K	W	F	Y	E	K	E	V	K	G
Secondary structure
SS confidence
Disorder																																?	?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.
Sequence		L	N	T	W	S	L
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 2gv5 chain C Region: 2 - 24 Aligned: 23 Modelled: 23 Confidence: 20.5% Identity: 39% PDB header:cell cycle Chain: C: PDB Molecule:sfi1p; PDBTitle: crystal structure of sfi1p/cdc31p complex Phyre2 PDB 1eys chain H domain 2 Region: 51 - 67 Aligned: 17 Modelled: 17 Confidence: 10.8% Identity: 24% Fold: Single transmembrane helix Superfamily: Photosystem II reaction centre subunit H, transmembrane region Family: Photosystem II reaction centre subunit H, transmembrane region Phyre2 PDB 3pcq chain X Region: 46 - 62 Aligned: 17 Modelled: 17 Confidence: 8.8% Identity: 24% PDB header:photosynthesis Chain: X: PDB Molecule:photosystem i 4.8k protein; PDBTitle: femtosecond x-ray protein nanocrystallography Phyre2 PDB 2w84 chain B Region: 6 - 19 Aligned: 14 Modelled: 14 Confidence: 8.3% Identity: 43% PDB header:protein transport Chain: B: PDB Molecule:peroxisomal targeting signal 1 receptor; PDBTitle: structure of pex14 in compex with pex5 Phyre2 PDB 1bhb chain A Region: 48 - 71 Aligned: 24 Modelled: 24 Confidence: 8.3% Identity: 13% 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 3cxj chain B Region: 34 - 56 Aligned: 23 Modelled: 23 Confidence: 8.0% Identity: 26% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from2 methanothermobacter thermautotrophicus Phyre2 PDB 2fiq chain A domain 1 Region: 24 - 43 Aligned: 20 Modelled: 16 Confidence: 7.9% Identity: 25% Fold: TIM beta/alpha-barrel Superfamily: Aldolase Family: GatZ-like Phyre2 PDB 2pco chain A Region: 70 - 76 Aligned: 7 Modelled: 7 Confidence: 7.7% Identity: 29% PDB header:toxin Chain: A: PDB Molecule:latarcin-1; PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide Phyre2 PDB 1vdi chain A Region: 70 - 76 Aligned: 7 Modelled: 7 Confidence: 6.8% Identity: 57% PDB header:contractile protein Chain: A: PDB Molecule:troponin i, fast skeletal muscle; PDBTitle: solution structure of actin-binding domain of troponin in2 ca2+-free state Phyre2 PDB 1riq chain A domain 1 Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 6.5% Identity: 60% Fold: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Superfamily: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Family: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Phyre2 PDB 1vf5 chain R Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 2e74 chain E domain 1 Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% Fold: Single transmembrane helix Superfamily: PetL subunit of the cytochrome b6f complex Family: PetL subunit of the cytochrome b6f complex Phyre2 PDB 2e75 chain E Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus Phyre2 PDB 2e74 chain E Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus Phyre2 PDB 2e76 chain E Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 PDB 1vf5 chain E Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 6.3% Identity: 57% PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 1 c2gv5C_ 2 d1eysh2 3 c3pcqX_ 4 c2w84B_ 5 c1bhbA_ 6 c3cxjB_ 7 d2fiqa1 8 c2pcoA_ 9 c1vdiA_ 10 d1riqa1 11 c1vf5R_ 12 d2e74e1 13 c2e75E_ 14 c2e74E_ 15 c2e76E_ 16 c1vf5E_

Detailed template information

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

1 c2gv5C_ 20.5 39 PDB header:cell cycle Chain: C: PDB Molecule:sfi1p; PDBTitle: crystal structure of sfi1p/cdc31p complex 2 d1eysh2 10.8 24 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 3 c3pcqX_ 8.8 24 PDB header:photosynthesis Chain: X: PDB Molecule:photosystem i 4.8k protein; PDBTitle: femtosecond x-ray protein nanocrystallography 4 c2w84B_ 8.3 43 PDB header:protein transport Chain: B: PDB Molecule:peroxisomal targeting signal 1 receptor; PDBTitle: structure of pex14 in compex with pex5 5 c1bhbA_ 8.3 13 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 6 c3cxjB_ 8.0 26 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from2 methanothermobacter thermautotrophicus 7 d2fiqa1 7.9 25 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:GatZ-like 8 c2pcoA_ 7.7 29 PDB header:toxin Chain: A: PDB Molecule:latarcin-1; PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide 9 c1vdiA_ 6.8 57 PDB header:contractile protein Chain: A: PDB Molecule:troponin i, fast skeletal muscle; PDBTitle: solution structure of actin-binding domain of troponin in2 ca2+-free state 10 d1riqa1 6.5 60 Fold:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Superfamily:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Family:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 11 c1vf5R_ 6.3 57 PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 12 d2e74e1 6.3 57 Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex 13 c2e75E_ 6.3 57 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus 14 c2e74E_ 6.3 57 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus 15 c2e76E_ 6.3 57 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 16 c1vf5E_ 6.3 57 PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus

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