Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	V	Y	W	L	D	I	V	G	T	A	V	F	A	I	S	G	V	L	L	A	G	K	L	R	M	D	P	F	G	V	L	V	L	G	V	V	T	A	V	G	G	G	T	I	R	D	M	A	L	D	H	G	P	V	F	W	V	K
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	P	T	D	L	V	V	A	M	V	T	S	M	L	T	I	V	L	V	R	Q	P	R	R	L	P	K	W	M	L	P	V	L	D	A	V	G	L	A	V	F	V	G	I	G	V	N	K	A	F	N	A	E	A	G	P	L	I	A	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		C	M	G	V	I	T	G	V	G	G	G	I	I	R	D	V	L	A	R	E	I	P	M	I	L	R	T	E	I	Y	A	T	A	C	I	I	G	G	I	V	H	A	T	A	Y	Y	T	F	S	V	P	L	E	T	A	S	M	M	G	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.
Sequence		V	V	T	L	L	I	R	L	A	A	I	R	W	H	L	K	L	P	T	F	A	L	D	E	N	G	R
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 1t3t chain A Region: 111 - 138 Aligned: 27 Modelled: 28 Confidence: 80.3% Identity: 37% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase; PDBTitle: structure of formylglycinamide synthetase Phyre2 PDB 1vfg chain A domain 2 Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 76.2% Identity: 38% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: Poly A polymerase head domain-like Phyre2 PDB 1miw chain A domain 2 Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 73.6% Identity: 38% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: Poly A polymerase head domain-like Phyre2 PDB 1vfg chain B Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 73.4% Identity: 38% PDB header:transferase/rna Chain: B: PDB Molecule:poly a polymerase; PDBTitle: crystal structure of trna nucleotidyltransferase complexed2 with a primer trna and an incoming atp analog Phyre2 PDB 1t3t chain A domain 4 Region: 111 - 138 Aligned: 27 Modelled: 28 Confidence: 70.4% Identity: 37% Fold: Bacillus chorismate mutase-like Superfamily: PurM N-terminal domain-like Family: PurM N-terminal domain-like Phyre2 PDB 3h37 chain B Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 68.8% Identity: 38% PDB header:transferase Chain: B: PDB Molecule:trna nucleotidyl transferase-related protein; PDBTitle: the structure of cca-adding enzyme apo form i Phyre2 PDB 3aqn chain A Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 67.9% Identity: 46% PDB header:transferase Chain: A: PDB Molecule:poly(a) polymerase; PDBTitle: complex structure of bacterial protein (apo form ii) Phyre2 PDB 1ou5 chain A Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 63.2% Identity: 38% PDB header:translation, transferase Chain: A: PDB Molecule:trna cca-adding enzyme; PDBTitle: crystal structure of human cca-adding enzyme Phyre2 PDB 1ou5 chain A domain 2 Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 62.0% Identity: 38% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: Poly A polymerase head domain-like Phyre2 PDB 1miy chain B Region: 43 - 55 Aligned: 13 Modelled: 13 Confidence: 61.0% Identity: 38% PDB header:translation, transferase Chain: B: PDB Molecule:trna cca-adding enzyme; PDBTitle: crystal structure of bacillus stearothermophilus cca-adding enzyme in2 complex with ctp Phyre2 PDB 3d54 chain I Region: 112 - 138 Aligned: 26 Modelled: 27 Confidence: 45.2% Identity: 54% PDB header:ligase Chain: I: PDB Molecule:phosphoribosylformylglycinamidine synthase ii; PDBTitle: stucture of purlqs from thermotoga maritima Phyre2 PDB 2hs0 chain A Region: 112 - 138 Aligned: 26 Modelled: 27 Confidence: 44.0% Identity: 54% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase ii; PDBTitle: t. maritima purl complexed with atp Phyre2 PDB 1vk3 chain A domain 1 Region: 112 - 138 Aligned: 26 Modelled: 27 Confidence: 42.5% Identity: 54% Fold: Bacillus chorismate mutase-like Superfamily: PurM N-terminal domain-like Family: PurM N-terminal domain-like Phyre2 PDB 3ac6 chain A Region: 112 - 138 Aligned: 26 Modelled: 25 Confidence: 23.3% Identity: 35% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase 2; PDBTitle: crystal structure of purl from thermus thermophilus Phyre2 PDB 2qdy chain A domain 1 Region: 50 - 64 Aligned: 14 Modelled: 15 Confidence: 18.3% Identity: 29% Fold: Nitrile hydratase alpha chain Superfamily: Nitrile hydratase alpha chain Family: Nitrile hydratase alpha chain Phyre2 PDB 1v29 chain A Region: 50 - 64 Aligned: 14 Modelled: 15 Confidence: 18.0% Identity: 36% Fold: Nitrile hydratase alpha chain Superfamily: Nitrile hydratase alpha chain Family: Nitrile hydratase alpha chain Phyre2 PDB 2dxb chain R Region: 50 - 64 Aligned: 14 Modelled: 15 Confidence: 17.7% Identity: 21% PDB header:hydrolase Chain: R: PDB Molecule:thiocyanate hydrolase subunit gamma; PDBTitle: recombinant thiocyanate hydrolase comprising partially-modified cobalt2 centers Phyre2 PDB 1ugp chain A Region: 50 - 64 Aligned: 14 Modelled: 15 Confidence: 16.9% Identity: 36% Fold: Nitrile hydratase alpha chain Superfamily: Nitrile hydratase alpha chain Family: Nitrile hydratase alpha chain Phyre2 PDB 3qyh chain G Region: 50 - 64 Aligned: 14 Modelled: 15 Confidence: 15.6% Identity: 29% PDB header:lyase Chain: G: PDB Molecule:co-type nitrile hydratase alpha subunit; PDBTitle: crystal structure of co-type nitrile hydratase beta-h71l from2 pseudomonas putida. Phyre2 PDB 1h9a chain A domain 2 Region: 131 - 139 Aligned: 9 Modelled: 9 Confidence: 9.5% Identity: 22% Fold: FwdE/GAPDH domain-like Superfamily: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family: Glucose 6-phosphate dehydrogenase-like Phyre2 1 c1t3tA_ 2 d1vfga2 3 d1miwa2 4 c1vfgB_ 5 d1t3ta4 6 c3h37B_ 7 c3aqnA_ 8 c1ou5A_ 9 d1ou5a2 10 c1miyB_ 11 c3d54I_ 12 c2hs0A_ 13 d1vk3a1 14 c3ac6A_ 15 d2qdya1 16 d1v29a_ 17 c2dxbR_ 18 d1ugpa_ 19 c3qyhG_ 20 d1h9aa2 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 c1t3tA_ 80.3 37 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase; PDBTitle: structure of formylglycinamide synthetase 2 d1vfga2 76.2 38 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Poly A polymerase head domain-like 3 d1miwa2 73.6 38 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Poly A polymerase head domain-like 4 c1vfgB_ 73.4 38 PDB header:transferase/rna Chain: B: PDB Molecule:poly a polymerase; PDBTitle: crystal structure of trna nucleotidyltransferase complexed2 with a primer trna and an incoming atp analog 5 d1t3ta4 70.4 37 Fold:Bacillus chorismate mutase-like Superfamily:PurM N-terminal domain-like Family:PurM N-terminal domain-like 6 c3h37B_ 68.8 38 PDB header:transferase Chain: B: PDB Molecule:trna nucleotidyl transferase-related protein; PDBTitle: the structure of cca-adding enzyme apo form i 7 c3aqnA_ 67.9 46 PDB header:transferase Chain: A: PDB Molecule:poly(a) polymerase; PDBTitle: complex structure of bacterial protein (apo form ii) 8 c1ou5A_ 63.2 38 PDB header:translation, transferase Chain: A: PDB Molecule:trna cca-adding enzyme; PDBTitle: crystal structure of human cca-adding enzyme 9 d1ou5a2 62.0 38 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Poly A polymerase head domain-like 10 c1miyB_ 61.0 38 PDB header:translation, transferase Chain: B: PDB Molecule:trna cca-adding enzyme; PDBTitle: crystal structure of bacillus stearothermophilus cca-adding enzyme in2 complex with ctp 11 c3d54I_ 45.2 54 PDB header:ligase Chain: I: PDB Molecule:phosphoribosylformylglycinamidine synthase ii; PDBTitle: stucture of purlqs from thermotoga maritima 12 c2hs0A_ 44.0 54 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase ii; PDBTitle: t. maritima purl complexed with atp 13 d1vk3a1 42.5 54 Fold:Bacillus chorismate mutase-like Superfamily:PurM N-terminal domain-like Family:PurM N-terminal domain-like 14 c3ac6A_ 23.3 35 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylformylglycinamidine synthase 2; PDBTitle: crystal structure of purl from thermus thermophilus 15 d2qdya1 18.3 29 Fold:Nitrile hydratase alpha chain Superfamily:Nitrile hydratase alpha chain Family:Nitrile hydratase alpha chain 16 d1v29a_ 18.0 36 Fold:Nitrile hydratase alpha chain Superfamily:Nitrile hydratase alpha chain Family:Nitrile hydratase alpha chain 17 c2dxbR_ 17.7 21 PDB header:hydrolase Chain: R: PDB Molecule:thiocyanate hydrolase subunit gamma; PDBTitle: recombinant thiocyanate hydrolase comprising partially-modified cobalt2 centers 18 d1ugpa_ 16.9 36 Fold:Nitrile hydratase alpha chain Superfamily:Nitrile hydratase alpha chain Family:Nitrile hydratase alpha chain 19 c3qyhG_ 15.6 29 PDB header:lyase Chain: G: PDB Molecule:co-type nitrile hydratase alpha subunit; PDBTitle: crystal structure of co-type nitrile hydratase beta-h71l from2 pseudomonas putida. 20 d1h9aa2 9.5 22 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Glucose 6-phosphate dehydrogenase-like 21 d1qkia2 not modelled 8.9 67 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Glucose 6-phosphate dehydrogenase-like 22 c3id6A_ not modelled 8.8 14 PDB header:transferase Chain: A: PDB Molecule:pre mrna splicing protein; PDBTitle: crystal structure of sulfolobus solfataricus nop5 (1-262) and2 fibrillarin complex 23 c1qkiE_ not modelled 6.7 67 PDB header:oxidoreductase Chain: E: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose 6-phosphate dehydrogenase2 (variant canton r459l) complexed with structural nadp+ 24 d1p4ea1 not modelled 6.5 27 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 25 c1v47B_ not modelled 6.4 14 PDB header:transferase Chain: B: PDB Molecule:atp sulfurylase; PDBTitle: crystal structure of atp sulfurylase from thermus2 thermophillus hb8 in complex with aps 26 c1h9aA_ not modelled 6.0 22 PDB header:oxidoreductase (choh(d) - nad(p)) Chain: A: PDB Molecule:glucose 6-phosphate 1-dehydrogenase; PDBTitle: complex of active mutant (q365->c) of glucose 6-phosphate2 dehydrogenase from l. mesenteroides with coenzyme nadp 27 c2bhlB_ not modelled 6.0 67 PDB header:oxidoreductase (choh(d)-nadp) Chain: B: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose-6-phosphate dehydrogenase2 (deletion variant) complexed with glucose-6-phosphate 28 d1otsa_ not modelled 5.5 7 Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel 29 c1or7C_ not modelled 5.1 26 PDB header:transcription Chain: C: PDB Molecule:sigma-e factor negative regulatory protein; PDBTitle: crystal structure of escherichia coli sigmae with the cytoplasmic2 domain of its anti-sigma rsea

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