Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	K	T	I	R	K	H	G	I	T	L	A	L	F	A	A	G	S	T	G	L	T	A	A	I	N	Q	M	T	K	T	T	I	A	E	Q	A	S	L	Q	Q	K	A	L	F	D	Q	V	L	P	A	E	R	Y	N	N	A	L	A
Secondary structure
SS confidence
Disorder		?	?																																																				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	S	C	Y	L	V	T	A	P	E	L	G	K	G	E	H	R	V	Y	I	A	K	Q	D	D	K	P	V	A	A	V	L	E	A	T	A	P	D	G	Y	S	G	A	I	Q	L	L	V	G	A	D	F	N	G	T	V	L	G	T	R
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	T	E	H	H	E	T	P	G	L	G	D	K	I	E	L	R	L	S	D	W	I	T	H	F	A	G	K	K	I	S	G	A	D	D	A	H	W	A	V	K	K	D	G	G	D	F	D	Q	F	T	G	A	T	I	T	P	R	A	V
Secondary structure
SS confidence
Disorder																													?	?	?		?	?	?	?	?	?	?	?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.
Sequence		V	N	A	V	K	R	A	G	L	Y	A	Q	T	L	P	A	Q	L	S	Q	L	P	A	C	G	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 3lwx chain A Region: 28 - 193 Aligned: 162 Modelled: 166 Confidence: 100.0% Identity: 19% PDB header:oxidoreductase Chain: A: PDB Molecule:nadh:ubiquinone oxidoreductase, na translocating, PDBTitle: crystal structure of na(+)-translocating nadh-quinone2 reductase subunit c (yp_001302508.1) from parabacteroides3 distasonis atcc 8503 at 1.10 a resolution Phyre2 PDB 3o6u chain B Region: 90 - 194 Aligned: 104 Modelled: 105 Confidence: 99.2% Identity: 14% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein cpe2226; PDBTitle: crystal structure of cpe2226 protein from clostridium perfringens.2 northeast structural genomics consortium target cpr195 Phyre2 PDB 2kzx chain A Region: 90 - 188 Aligned: 98 Modelled: 99 Confidence: 99.1% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of a3dht5 from clostridium thermocellum,2 northeast structural genomics consortium target cmr116 Phyre2 PDB 3dcz chain A Region: 40 - 193 Aligned: 132 Modelled: 141 Confidence: 98.4% Identity: 21% PDB header:oxidoreductase Chain: A: PDB Molecule:putative rnfg subunit of electron transport complex; PDBTitle: crystal structure of a putative rnfg subunit of electron transport2 complex (tm0246) from thermotoga maritima at 1.65 a resolution Phyre2 PDB 1u07 chain A Region: 99 - 142 Aligned: 44 Modelled: 44 Confidence: 76.4% Identity: 9% Fold: TolA/TonB C-terminal domain Superfamily: TolA/TonB C-terminal domain Family: TonB Phyre2 PDB 1ihr chain A Region: 98 - 142 Aligned: 45 Modelled: 45 Confidence: 75.9% Identity: 9% Fold: TolA/TonB C-terminal domain Superfamily: TolA/TonB C-terminal domain Family: TonB Phyre2 PDB 2gsk chain B domain 1 Region: 98 - 142 Aligned: 45 Modelled: 45 Confidence: 72.3% Identity: 9% Fold: TolA/TonB C-terminal domain Superfamily: TolA/TonB C-terminal domain Family: TonB Phyre2 PDB 2k9k chain A Region: 99 - 142 Aligned: 44 Modelled: 44 Confidence: 71.8% Identity: 18% PDB header:metal transport Chain: A: PDB Molecule:tonb2; PDBTitle: molecular characterization of the tonb2 protein from vibrio2 anguillarum Phyre2 PDB 1xx3 chain A Region: 98 - 142 Aligned: 45 Modelled: 45 Confidence: 66.2% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:tonb protein; PDBTitle: solution structure of escherichia coli tonb-ctd Phyre2 PDB 1wfz chain A Region: 101 - 204 Aligned: 93 Modelled: 104 Confidence: 43.3% Identity: 16% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 PDB 2grx chain C Region: 99 - 142 Aligned: 44 Modelled: 44 Confidence: 42.5% Identity: 9% PDB header:metal transport Chain: C: PDB Molecule:protein tonb; PDBTitle: crystal structure of tonb in complex with fhua, e. coli2 outer membrane receptor for ferrichrome Phyre2 PDB 1lr0 chain A Region: 101 - 125 Aligned: 25 Modelled: 23 Confidence: 37.9% Identity: 16% Fold: TolA/TonB C-terminal domain Superfamily: TolA/TonB C-terminal domain Family: TolA Phyre2 PDB 2z7e chain B Region: 101 - 206 Aligned: 95 Modelled: 101 Confidence: 19.7% Identity: 15% PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster Phyre2 PDB 1r9p chain A Region: 101 - 152 Aligned: 47 Modelled: 52 Confidence: 13.8% Identity: 17% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 PDB 1gr0 chain A Region: 127 - 186 Aligned: 46 Modelled: 60 Confidence: 12.6% Identity: 26% PDB header:isomerase Chain: A: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: myo-inositol 1-phosphate synthase from mycobacterium2 tuberculosis in complex with nad and zinc. Phyre2 PDB 1fus chain A Region: 172 - 195 Aligned: 24 Modelled: 24 Confidence: 11.1% Identity: 21% Fold: Microbial ribonucleases Superfamily: Microbial ribonucleases Family: Fungal ribonucleases Phyre2 PDB 2k5t chain A Region: 107 - 193 Aligned: 76 Modelled: 87 Confidence: 10.0% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:uncharacterized protein yhhk; PDBTitle: solution nmr structure of putative n-acetyl transferase2 yhhk from e. coli bound to coenzyme a: northeast3 structural genomics consortium target et106 Phyre2 PDB 1rds chain A Region: 172 - 194 Aligned: 23 Modelled: 23 Confidence: 7.1% Identity: 9% Fold: Microbial ribonucleases Superfamily: Microbial ribonucleases Family: Fungal ribonucleases Phyre2 PDB 1d4c chain B Region: 160 - 184 Aligned: 25 Modelled: 25 Confidence: 6.9% Identity: 12% PDB header:oxidoreductase Chain: B: PDB Molecule:flavocytochrome c fumarate reductase; PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1 Phyre2 PDB 1szw chain A Region: 124 - 142 Aligned: 19 Modelled: 19 Confidence: 6.6% Identity: 16% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: tRNA pseudouridine synthase TruD Phyre2 1 c3lwxA_ 2 c3o6uB_ 3 c2kzxA_ 4 c3dczA_ 5 d1u07a_ 6 d1ihra_ 7 d2gskb1 8 c2k9kA_ 9 c1xx3A_ 10 d1wfza_ 11 c2grxC_ 12 d1lr0a_ 13 c2z7eB_ 14 d1r9pa_ 15 c1gr0A_ 16 d1fusa_ 17 c2k5tA_ 18 d1rdsa_ 19 c1d4cB_ 20 d1szwa_ 21 22 23 24 25 26 27

Detailed template information

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

1 c3lwxA_ 100.0 19 PDB header:oxidoreductase Chain: A: PDB Molecule:nadh:ubiquinone oxidoreductase, na translocating, PDBTitle: crystal structure of na(+)-translocating nadh-quinone2 reductase subunit c (yp_001302508.1) from parabacteroides3 distasonis atcc 8503 at 1.10 a resolution 2 c3o6uB_ 99.2 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein cpe2226; PDBTitle: crystal structure of cpe2226 protein from clostridium perfringens.2 northeast structural genomics consortium target cpr195 3 c2kzxA_ 99.1 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of a3dht5 from clostridium thermocellum,2 northeast structural genomics consortium target cmr116 4 c3dczA_ 98.4 21 PDB header:oxidoreductase Chain: A: PDB Molecule:putative rnfg subunit of electron transport complex; PDBTitle: crystal structure of a putative rnfg subunit of electron transport2 complex (tm0246) from thermotoga maritima at 1.65 a resolution 5 d1u07a_ 76.4 9 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TonB 6 d1ihra_ 75.9 9 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TonB 7 d2gskb1 72.3 9 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TonB 8 c2k9kA_ 71.8 18 PDB header:metal transport Chain: A: PDB Molecule:tonb2; PDBTitle: molecular characterization of the tonb2 protein from vibrio2 anguillarum 9 c1xx3A_ 66.2 9 PDB header:transport protein Chain: A: PDB Molecule:tonb protein; PDBTitle: solution structure of escherichia coli tonb-ctd 10 d1wfza_ 43.3 16 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 11 c2grxC_ 42.5 9 PDB header:metal transport Chain: C: PDB Molecule:protein tonb; PDBTitle: crystal structure of tonb in complex with fhua, e. coli2 outer membrane receptor for ferrichrome 12 d1lr0a_ 37.9 16 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TolA 13 c2z7eB_ 19.7 15 PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster 14 d1r9pa_ 13.8 17 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 15 c1gr0A_ 12.6 26 PDB header:isomerase Chain: A: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: myo-inositol 1-phosphate synthase from mycobacterium2 tuberculosis in complex with nad and zinc. 16 d1fusa_ 11.1 21 Fold:Microbial ribonucleases Superfamily:Microbial ribonucleases Family:Fungal ribonucleases 17 c2k5tA_ 10.0 16 PDB header:transferase Chain: A: PDB Molecule:uncharacterized protein yhhk; PDBTitle: solution nmr structure of putative n-acetyl transferase2 yhhk from e. coli bound to coenzyme a: northeast3 structural genomics consortium target et106 18 d1rdsa_ 7.1 9 Fold:Microbial ribonucleases Superfamily:Microbial ribonucleases Family:Fungal ribonucleases 19 c1d4cB_ 6.9 12 PDB header:oxidoreductase Chain: B: PDB Molecule:flavocytochrome c fumarate reductase; PDBTitle: crystal structure of the uncomplexed form of the2 flavocytochrome c fumarate reductase of shewanella3 putrefaciens strain mr-1 20 d1szwa_ 6.6 16 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:tRNA pseudouridine synthase TruD 21 c2koeA_ not modelled 6.5 18 PDB header:membrane protein, signaling protein Chain: A: PDB Molecule:human cannabinoid receptor 1 - helix 7/8 peptide; PDBTitle: human cannabinoid receptor 1 - helix 7/8 peptide 22 c1x5dA_ not modelled 6.5 19 PDB header:isomerase Chain: A: PDB Molecule:protein disulfide-isomerase a6; PDBTitle: the solution structure of the second thioredoxin-like2 domain of human protein disulfide-isomerase a6 23 d1gr0a2 not modelled 6.5 40 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Dihydrodipicolinate reductase-like 24 c3dinD_ not modelled 6.5 6 PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase 25 d2bv3a3 not modelled 6.1 18 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 26 d3c0na1 not modelled 5.7 36 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Aerolysin/Pertussis toxin (APT) domain 27 d1vjpa1 not modelled 5.6 11 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain

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