Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	L	A	I	A	G	A	L	L	L	L	A	G	C	A	E	V	E	N	Y	N	N	V	V	K	T	P	A	P	D	W	L	A	G	Y	W	Q	T	K	G	P	Q	R	A	L	V	S	P	E	A	I	G	S	L	I	V	T	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																																			?		?	?	?	?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	G	D	T	L	D	C	R	Q	W	Q	R	V	I	A	V	P	G	K	L	T	L	M	S	D	D	L	T	N	V	T	V	K	R	E	L	Y	E	V	E	R	D	G	N	T	I	E	Y	D	G	M	T	M	E	R	V	D	R	P	T
Secondary structure
SS confidence
Disorder		?																	?	?	?		?	?		?															?		?													?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.
Sequence		A	E	C	A	A	A	L	D	K	A	P	L	P	T	P	L	P
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 3au9 chain A Region: 2 - 62 Aligned: 61 Modelled: 61 Confidence: 37.0% Identity: 18% PDB header:isomerase/isomerase inhibitor Chain: A: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: crystal structure of the quaternary complex-1 of an isomerase Phyre2 PDB 2ijr chain A domain 1 Region: 11 - 54 Aligned: 38 Modelled: 44 Confidence: 22.7% Identity: 24% Fold: Api92-like Superfamily: Api92-like Family: Api92-like Phyre2 PDB 1ei5 chain A domain 1 Region: 72 - 115 Aligned: 44 Modelled: 44 Confidence: 19.7% Identity: 30% Fold: Streptavidin-like Superfamily: D-aminopeptidase, middle and C-terminal domains Family: D-aminopeptidase, middle and C-terminal domains Phyre2 PDB 1zy9 chain A domain 1 Region: 34 - 51 Aligned: 18 Modelled: 18 Confidence: 18.5% Identity: 33% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: YicI N-terminal domain-like Phyre2 PDB 2jrb chain A Region: 61 - 74 Aligned: 14 Modelled: 14 Confidence: 17.0% Identity: 43% PDB header:rna binding protein Chain: A: PDB Molecule:orf 1 protein; PDBTitle: c-terminal domain of orf1p from mouse line-1 Phyre2 PDB 1smp chain I Region: 29 - 61 Aligned: 26 Modelled: 33 Confidence: 15.1% Identity: 23% Fold: Streptavidin-like Superfamily: beta-Barrel protease inhibitors Family: Metalloprotease inhibitor Phyre2 PDB 1r0l chain D Region: 2 - 62 Aligned: 57 Modelled: 61 Confidence: 12.5% Identity: 21% PDB header:oxidoreductase Chain: D: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: 1-deoxy-d-xylulose 5-phosphate reductoisomerase from2 zymomonas mobilis in complex with nadph Phyre2 PDB 1k5h chain B Region: 2 - 62 Aligned: 60 Modelled: 61 Confidence: 9.3% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:1-deoxy-d-xylulose-5-phosphate reductoisomerase; PDBTitle: 1-deoxy-d-xylulose-5-phosphate reductoisomerase Phyre2 PDB 2ctd chain A domain 1 Region: 69 - 81 Aligned: 13 Modelled: 13 Confidence: 8.6% Identity: 31% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2jcy chain A Region: 2 - 62 Aligned: 57 Modelled: 57 Confidence: 8.4% Identity: 19% PDB header:oxidoreductase Chain: A: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: x-ray structure of mutant 1-deoxy-d-xylulose 5-phosphate2 reductoisomerase, dxr, rv2870c, from mycobacterium3 tuberculosis Phyre2 PDB 1ggl chain A Region: 31 - 70 Aligned: 40 Modelled: 40 Confidence: 7.4% Identity: 15% Fold: Lipocalins Superfamily: Lipocalins Family: Fatty acid binding protein-like Phyre2 PDB 1uow chain A Region: 45 - 96 Aligned: 49 Modelled: 52 Confidence: 7.3% Identity: 20% Fold: C2 domain-like Superfamily: C2 domain (Calcium/lipid-binding domain, CaLB) Family: Synaptotagmin-like (S variant) Phyre2 PDB 2x3b chain B Region: 93 - 122 Aligned: 29 Modelled: 30 Confidence: 7.0% Identity: 38% PDB header:hydrolase Chain: B: PDB Molecule:toxic extracellular endopeptidase; PDBTitle: asap1 inactive mutant e294a, an extracellular toxic zinc2 metalloendopeptidase Phyre2 PDB 1a6c chain A Region: 60 - 92 Aligned: 33 Modelled: 33 Confidence: 6.8% Identity: 15% PDB header:virus Chain: A: PDB Molecule:tobacco ringspot virus capsid protein; PDBTitle: structure of tobacco ringspot virus Phyre2 PDB 3a14 chain B Region: 2 - 62 Aligned: 53 Modelled: 61 Confidence: 6.6% Identity: 19% PDB header:oxidoreductase Chain: B: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: crystal structure of dxr from thermotoga maritima, in complex with2 nadph Phyre2 PDB 1j3n chain A domain 1 Region: 1 - 27 Aligned: 27 Modelled: 27 Confidence: 6.5% Identity: 15% Fold: Thiolase-like Superfamily: Thiolase-like Family: Thiolase-related Phyre2 PDB 3mon chain F Region: 108 - 119 Aligned: 12 Modelled: 12 Confidence: 6.3% Identity: 42% PDB header:sweet-tasting protein Chain: F: PDB Molecule:monellin; PDBTitle: crystal structures of two intensely sweet proteins Phyre2 PDB 1r0k chain A domain 3 Region: 29 - 62 Aligned: 30 Modelled: 34 Confidence: 6.2% Identity: 17% Fold: FwdE/GAPDH domain-like Superfamily: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family: Dihydrodipicolinate reductase-like Phyre2 PDB 1bu2 chain A domain 2 Region: 43 - 70 Aligned: 28 Modelled: 28 Confidence: 6.2% Identity: 50% Fold: Cyclin-like Superfamily: Cyclin-like Family: Cyclin Phyre2 PDB 1eg1 chain A Region: 58 - 109 Aligned: 50 Modelled: 52 Confidence: 6.1% Identity: 22% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 1 c3au9A_ 2 d2ijra1 3 d1ei5a1 4 d1zy9a1 5 c2jrbA_ 6 d1smpi_ 7 c1r0lD_ 8 c1k5hB_ 9 d2ctda1 10 c2jcyA_ 11 d1ggla_ 12 d1uowa_ 13 c2x3bB_ 14 c1a6cA_ 15 c3a14B_ 16 d1j3na1 17 c3monF_ 18 d1r0ka3 19 d1bu2a2 20 d1eg1a_ 21 22 23 24

Detailed template information

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

1 c3au9A_ 37.0 18 PDB header:isomerase/isomerase inhibitor Chain: A: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: crystal structure of the quaternary complex-1 of an isomerase 2 d2ijra1 22.7 24 Fold:Api92-like Superfamily:Api92-like Family:Api92-like 3 d1ei5a1 19.7 30 Fold:Streptavidin-like Superfamily:D-aminopeptidase, middle and C-terminal domains Family:D-aminopeptidase, middle and C-terminal domains 4 d1zy9a1 18.5 33 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:YicI N-terminal domain-like 5 c2jrbA_ 17.0 43 PDB header:rna binding protein Chain: A: PDB Molecule:orf 1 protein; PDBTitle: c-terminal domain of orf1p from mouse line-1 6 d1smpi_ 15.1 23 Fold:Streptavidin-like Superfamily:beta-Barrel protease inhibitors Family:Metalloprotease inhibitor 7 c1r0lD_ 12.5 21 PDB header:oxidoreductase Chain: D: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: 1-deoxy-d-xylulose 5-phosphate reductoisomerase from2 zymomonas mobilis in complex with nadph 8 c1k5hB_ 9.3 20 PDB header:oxidoreductase Chain: B: PDB Molecule:1-deoxy-d-xylulose-5-phosphate reductoisomerase; PDBTitle: 1-deoxy-d-xylulose-5-phosphate reductoisomerase 9 d2ctda1 8.6 31 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 10 c2jcyA_ 8.4 19 PDB header:oxidoreductase Chain: A: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: x-ray structure of mutant 1-deoxy-d-xylulose 5-phosphate2 reductoisomerase, dxr, rv2870c, from mycobacterium3 tuberculosis 11 d1ggla_ 7.4 15 Fold:Lipocalins Superfamily:Lipocalins Family:Fatty acid binding protein-like 12 d1uowa_ 7.3 20 Fold:C2 domain-like Superfamily:C2 domain (Calcium/lipid-binding domain, CaLB) Family:Synaptotagmin-like (S variant) 13 c2x3bB_ 7.0 38 PDB header:hydrolase Chain: B: PDB Molecule:toxic extracellular endopeptidase; PDBTitle: asap1 inactive mutant e294a, an extracellular toxic zinc2 metalloendopeptidase 14 c1a6cA_ 6.8 15 PDB header:virus Chain: A: PDB Molecule:tobacco ringspot virus capsid protein; PDBTitle: structure of tobacco ringspot virus 15 c3a14B_ 6.6 19 PDB header:oxidoreductase Chain: B: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: crystal structure of dxr from thermotoga maritima, in complex with2 nadph 16 d1j3na1 6.5 15 Fold:Thiolase-like Superfamily:Thiolase-like Family:Thiolase-related 17 c3monF_ 6.3 42 PDB header:sweet-tasting protein Chain: F: PDB Molecule:monellin; PDBTitle: crystal structures of two intensely sweet proteins 18 d1r0ka3 6.2 17 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Dihydrodipicolinate reductase-like 19 d1bu2a2 6.2 50 Fold:Cyclin-like Superfamily:Cyclin-like Family:Cyclin 20 d1eg1a_ 6.1 22 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 21 c3hmhA_ not modelled 5.5 25 PDB header:transcription Chain: A: PDB Molecule:transcription initiation factor tfiid 210 kda subunit; PDBTitle: crystal structure of the second bromodomain of human tbp-associated2 factor rna polymerase 1-like (taf1l) 22 c3p19A_ not modelled 5.3 40 PDB header:oxidoreductase Chain: A: PDB Molecule:putative blue fluorescent protein; PDBTitle: improved nadph-dependent blue fluorescent protein 23 d1q0qa3 not modelled 5.1 18 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Dihydrodipicolinate reductase-like 24 c2eghA_ not modelled 5.1 18 PDB header:oxidoreductase Chain: A: PDB Molecule:1-deoxy-d-xylulose 5-phosphate reductoisomerase; PDBTitle: crystal structure of 1-deoxy-d-xylulose 5-phosphate reductoisomerase2 complexed with a magnesium ion, nadph and fosmidomycin

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