Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.
Sequence		M	V	H	Y	E	V	V	Q	Y	L	M	D	C	C	G	I	T	Y	N	Q	A	V	Q	A	L	R	S	N	D	W	D	L	W	Q	A	E	V	A	I	R	S	N	K	M
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 1ify chain A Region: 5 - 35 Aligned: 30 Modelled: 31 Confidence: 76.4% Identity: 23% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1v92 chain A Region: 3 - 35 Aligned: 33 Modelled: 33 Confidence: 60.7% Identity: 24% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: TAP-C domain-like Phyre2 PDB 1oqy chain A domain 1 Region: 5 - 35 Aligned: 30 Modelled: 31 Confidence: 53.1% Identity: 23% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2g3q chain A domain 1 Region: 15 - 32 Aligned: 18 Modelled: 18 Confidence: 43.0% Identity: 44% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1i9s chain A Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 25.1% Identity: 14% Fold: (Phosphotyrosine protein) phosphatases II Superfamily: (Phosphotyrosine protein) phosphatases II Family: Dual specificity phosphatase-like Phyre2 PDB 2gwo chain C Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 22.7% Identity: 32% PDB header:hydrolase Chain: C: PDB Molecule:dual specificity protein phosphatase 13; PDBTitle: crystal structure of tmdp Phyre2 PDB 2fw9 chain A Region: 21 - 43 Aligned: 23 Modelled: 23 Confidence: 22.3% Identity: 17% PDB header:lyase Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide mutase; PDBTitle: structure of pure (n5-carboxyaminoimidazole ribonucleotide mutase)2 h59f from the acidophilic bacterium acetobacter aceti, at ph 8 Phyre2 PDB 1u11 chain A Region: 21 - 43 Aligned: 23 Modelled: 23 Confidence: 21.9% Identity: 17% Fold: Flavodoxin-like Superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Phyre2 PDB 1wiv chain A Region: 5 - 42 Aligned: 37 Modelled: 38 Confidence: 20.8% Identity: 24% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 3ech chain C Region: 19 - 33 Aligned: 15 Modelled: 15 Confidence: 20.4% Identity: 47% PDB header:transcription, transcription regulation Chain: C: PDB Molecule:25-mer fragment of protein armr; PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr Phyre2 PDB 3trh chain I Region: 21 - 43 Aligned: 23 Modelled: 23 Confidence: 18.5% Identity: 30% PDB header:lyase Chain: I: PDB Molecule:phosphoribosylaminoimidazole carboxylase PDBTitle: structure of a phosphoribosylaminoimidazole carboxylase catalytic2 subunit (pure) from coxiella burnetii Phyre2 PDB 3bq3 chain A Region: 5 - 35 Aligned: 31 Modelled: 31 Confidence: 17.6% Identity: 16% PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 Phyre2 PDB 1yn9 chain B Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 16.9% Identity: 32% PDB header:hydrolase Chain: B: PDB Molecule:polynucleotide 5'-phosphatase; PDBTitle: crystal structure of baculovirus rna 5'-phosphatase2 complexed with phosphate Phyre2 PDB 2ekk chain A Region: 2 - 28 Aligned: 26 Modelled: 27 Confidence: 16.8% Identity: 38% PDB header:protein binding Chain: A: PDB Molecule:uba domain from e3 ubiquitin-protein ligase PDBTitle: solution structure of ruh-074, a human uba domain Phyre2 PDB 3nme chain A Region: 6 - 27 Aligned: 22 Modelled: 20 Confidence: 15.6% Identity: 23% PDB header:hydrolase Chain: A: PDB Molecule:sex4 glucan phosphatase; PDBTitle: structure of a plant phosphatase Phyre2 PDB 2jp7 chain A Region: 2 - 43 Aligned: 42 Modelled: 42 Confidence: 15.2% Identity: 14% PDB header:translation Chain: A: PDB Molecule:mrna export factor mex67; PDBTitle: nmr structure of the mex67 uba domain Phyre2 PDB 2dak chain A Region: 5 - 35 Aligned: 30 Modelled: 31 Confidence: 14.9% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin carboxyl-terminal hydrolase 5; PDBTitle: solution structure of the second uba domain in the human2 ubiquitin specific protease 5 (isopeptidase 5) Phyre2 PDB 2dkl chain A domain 1 Region: 15 - 44 Aligned: 30 Modelled: 30 Confidence: 14.7% Identity: 37% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1oqy chain A domain 2 Region: 5 - 35 Aligned: 30 Modelled: 31 Confidence: 13.9% Identity: 20% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2esb chain A Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 12.9% Identity: 23% PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase 18; PDBTitle: crystal structure of human dusp18 Phyre2 1 d1ifya_ 2 d1v92a_ 3 d1oqya1 4 d2g3qa1 5 d1i9sa_ 6 c2gwoC_ 7 c2fw9A_ 8 d1u11a_ 9 d1wiva_ 10 c3echC_ 11 c3trhI_ 12 c3bq3A_ 13 c1yn9B_ 14 c2ekkA_ 15 c3nmeA_ 16 c2jp7A_ 17 c2dakA_ 18 d2dkla1 19 d1oqya2 20 c2esbA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53

Detailed template information

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

1 d1ifya_ 76.4 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 2 d1v92a_ 60.7 24 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-like 3 d1oqya1 53.1 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 4 d2g3qa1 43.0 44 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 5 d1i9sa_ 25.1 14 Fold:(Phosphotyrosine protein) phosphatases II Superfamily:(Phosphotyrosine protein) phosphatases II Family:Dual specificity phosphatase-like 6 c2gwoC_ 22.7 32 PDB header:hydrolase Chain: C: PDB Molecule:dual specificity protein phosphatase 13; PDBTitle: crystal structure of tmdp 7 c2fw9A_ 22.3 17 PDB header:lyase Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide mutase; PDBTitle: structure of pure (n5-carboxyaminoimidazole ribonucleotide mutase)2 h59f from the acidophilic bacterium acetobacter aceti, at ph 8 8 d1u11a_ 21.9 17 Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 9 d1wiva_ 20.8 24 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 10 c3echC_ 20.4 47 PDB header:transcription, transcription regulation Chain: C: PDB Molecule:25-mer fragment of protein armr; PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr 11 c3trhI_ 18.5 30 PDB header:lyase Chain: I: PDB Molecule:phosphoribosylaminoimidazole carboxylase PDBTitle: structure of a phosphoribosylaminoimidazole carboxylase catalytic2 subunit (pure) from coxiella burnetii 12 c3bq3A_ 17.6 16 PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 13 c1yn9B_ 16.9 32 PDB header:hydrolase Chain: B: PDB Molecule:polynucleotide 5'-phosphatase; PDBTitle: crystal structure of baculovirus rna 5'-phosphatase2 complexed with phosphate 14 c2ekkA_ 16.8 38 PDB header:protein binding Chain: A: PDB Molecule:uba domain from e3 ubiquitin-protein ligase PDBTitle: solution structure of ruh-074, a human uba domain 15 c3nmeA_ 15.6 23 PDB header:hydrolase Chain: A: PDB Molecule:sex4 glucan phosphatase; PDBTitle: structure of a plant phosphatase 16 c2jp7A_ 15.2 14 PDB header:translation Chain: A: PDB Molecule:mrna export factor mex67; PDBTitle: nmr structure of the mex67 uba domain 17 c2dakA_ 14.9 30 PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin carboxyl-terminal hydrolase 5; PDBTitle: solution structure of the second uba domain in the human2 ubiquitin specific protease 5 (isopeptidase 5) 18 d2dkla1 14.7 37 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 19 d1oqya2 13.9 20 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 20 c2esbA_ 12.9 23 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase 18; PDBTitle: crystal structure of human dusp18 21 c3lp6D_ not modelled 12.5 27 PDB header:lyase Chain: D: PDB Molecule:phosphoribosylaminoimidazole carboxylase catalytic subunit; PDBTitle: crystal structure of rv3275c-e60a from mycobacterium tuberculosis at2 1.7a resolution 22 c2y96A_ not modelled 12.3 35 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity phosphatase dupd1; PDBTitle: structure of human dual-specificity phosphatase 27 23 c2ywxA_ not modelled 11.9 18 PDB header:lyase Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase catalytic subunit; PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase2 catalytic subunit from methanocaldococcus jannaschii 24 c2imgA_ not modelled 11.4 23 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase 23; PDBTitle: crystal structure of dual specificity protein phosphatase2 23 from homo sapiens in complex with ligand malate ion 25 c2c46B_ not modelled 11.4 13 PDB header:transferase Chain: B: PDB Molecule:mrna capping enzyme; PDBTitle: crystal structure of the human rna guanylyltransferase and2 5'-phosphatase 26 d1qcza_ not modelled 11.0 30 Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 27 d1o4va_ not modelled 10.8 9 Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 28 c2r0bA_ not modelled 10.4 27 PDB header:hydrolase Chain: A: PDB Molecule:serine/threonine/tyrosine-interacting protein; PDBTitle: crystal structure of human tyrosine phosphatase-like2 serine/threonine/tyrosine-interacting protein 29 c3orsD_ not modelled 10.4 18 PDB header:isomerase,biosynthetic protein Chain: D: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide mutase; PDBTitle: crystal structure of n5-carboxyaminoimidazole ribonucleotide mutase2 from staphylococcus aureus 30 d1xmpa_ not modelled 10.1 30 Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 31 d1oaia_ not modelled 9.5 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-like 32 c2h31A_ not modelled 9.5 22 PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis 33 c3emuA_ not modelled 9.5 18 PDB header:hydrolase Chain: A: PDB Molecule:leucine rich repeat and phosphatase domain PDBTitle: crystal structure of a leucine rich repeat and phosphatase2 domain containing protein from entamoeba histolytica 34 c3rggD_ not modelled 9.2 9 PDB header:lyase Chain: D: PDB Molecule:phosphoribosylaminoimidazole carboxylase, pure protein; PDBTitle: crystal structure of treponema denticola pure bound to air 35 c2hcmA_ not modelled 9.0 32 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase; PDBTitle: crystal structure of mouse putative dual specificity phosphatase2 complexed with zinc tungstate, new york structural genomics3 consortium 36 c3pcsB_ not modelled 8.5 36 PDB header:protein transport/transferase Chain: B: PDB Molecule:espg; PDBTitle: structure of espg-pak2 autoinhibitory ialpha3 helix complex 37 d1vega_ not modelled 7.9 27 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 38 c2crnA_ not modelled 7.8 24 PDB header:immune system Chain: A: PDB Molecule:ubash3a protein; PDBTitle: solution structure of the uba domain of human ubash3a2 protein 39 d1go5a_ not modelled 7.7 22 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-like 40 d1gyza_ not modelled 7.3 21 Fold:PABP domain-like Superfamily:Ribosomal protein L20 Family:Ribosomal protein L20 41 c1tr8A_ not modelled 7.2 23 PDB header:chaperone Chain: A: PDB Molecule:conserved protein (mth177); PDBTitle: crystal structure of archaeal nascent polypeptide-associated complex2 (aenac) 42 d1mkpa_ not modelled 6.9 27 Fold:(Phosphotyrosine protein) phosphatases II Superfamily:(Phosphotyrosine protein) phosphatases II Family:Dual specificity phosphatase-like 43 c2daiA_ not modelled 6.5 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ubiquitin associated domain containing 1; PDBTitle: solution structure of the first uba domain in the human2 ubiquitin associated domain containing 1 (ubadc1) 44 c1wrmA_ not modelled 6.5 23 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity phosphatase 22; PDBTitle: crystal structure of jsp-1 45 d1wj7a1 not modelled 6.4 32 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 46 c2e0tA_ not modelled 6.3 27 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity phosphatase 26; PDBTitle: crystal structure of catalytic domain of dual specificity phosphatase2 26, ms0830 from homo sapiens 47 d1veka_ not modelled 6.0 24 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 48 c3s4oB_ not modelled 6.0 18 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein tyrosine phosphatase-like protein; PDBTitle: protein tyrosine phosphatase (putative) from leishmania major 49 d1pk1c1 not modelled 5.8 16 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 50 d1xb2b1 not modelled 5.7 26 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TS-N domain 51 d1h2vc1 not modelled 5.7 27 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:MIF4G domain-like 52 d1uqva_ not modelled 5.5 22 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 53 d1wuua2 not modelled 5.3 46 Fold:Ferredoxin-like Superfamily:GHMP Kinase, C-terminal domain Family:Galactokinase

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