Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	M	I	G	Y	F	A	E	I	D	S	E	K	I	N	Q	L	L	E	S	T	E	K	P	L	M	D	N	I	H	D	T	L	S	G	L	R	R	L	D	I	D	K	R	W	D	F	L	H	F	G	L	T	G	T	S	A	F	D
Secondary structure
SS confidence
Disorder		?	?	?																																																							?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	A	K	N	D	P	L	S	R	A	V	L	G	E	H	S	L	E	D	G	I	D	G	F	L	G	L	T	W	N	Q	E	L	A	A	T	I	D	R	L	E	S	L	D	R	N	E	L	R	K	Q	F	S	I	K	R	L	N	E	M
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.
Sequence		E	I	Y	P	G	V	T	F	S	E	E	L	E	G	Q	L	F	A	S	I	M	L	D	M	E	K	L	I	S	A	Y	R	R	M	L	R	Q	G	N	H	A	L	T	V	I	V	G
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 1ryl chain A Region: 3 - 166 Aligned: 157 Modelled: 164 Confidence: 100.0% Identity: 98% Fold: Hypothetical protein yfbM Superfamily: Hypothetical protein yfbM Family: Hypothetical protein yfbM Phyre2 PDB 3tek chain A Region: 132 - 157 Aligned: 26 Modelled: 26 Confidence: 21.6% Identity: 4% PDB header:dna binding protein Chain: A: PDB Molecule:thermodbp-single stranded dna binding protein; PDBTitle: thermodbp: a non-canonical single-stranded dna binding protein with a2 novel structure and mechanism Phyre2 PDB 1bbh chain A Region: 88 - 159 Aligned: 68 Modelled: 72 Confidence: 21.3% Identity: 7% Fold: Four-helical up-and-down bundle Superfamily: Cytochromes Family: Cytochrome c'-like Phyre2 PDB 2o3b chain B domain 1 Region: 88 - 167 Aligned: 70 Modelled: 75 Confidence: 19.7% Identity: 11% Fold: Nuclease A inhibitor (NuiA) Superfamily: Nuclease A inhibitor (NuiA) Family: Nuclease A inhibitor (NuiA) Phyre2 PDB 1e85 chain A Region: 88 - 159 Aligned: 66 Modelled: 72 Confidence: 18.5% Identity: 12% Fold: Four-helical up-and-down bundle Superfamily: Cytochromes Family: Cytochrome c'-like Phyre2 PDB 1iwe chain B Region: 104 - 163 Aligned: 57 Modelled: 60 Confidence: 16.2% Identity: 12% PDB header:ligase Chain: B: PDB Molecule:adenylosuccinate synthetase; PDBTitle: imp complex of the recombinant mouse-muscle2 adenylosuccinate synthetase Phyre2 PDB 1p9b chain A Region: 103 - 163 Aligned: 58 Modelled: 61 Confidence: 16.2% Identity: 12% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nitrogenase iron protein-like Phyre2 PDB 1gqa chain A Region: 88 - 158 Aligned: 67 Modelled: 71 Confidence: 16.0% Identity: 10% Fold: Four-helical up-and-down bundle Superfamily: Cytochromes Family: Cytochrome c'-like Phyre2 PDB 2hma chain A Region: 47 - 101 Aligned: 55 Modelled: 55 Confidence: 13.7% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:probable trna (5-methylaminomethyl-2-thiouridylate)- PDBTitle: the crystal structure of trna (5-methylaminomethyl-2-thiouridylate)-2 methyltransferase trmu from streptococcus pneumoniae Phyre2 PDB 2o0q chain A domain 1 Region: 79 - 100 Aligned: 22 Modelled: 22 Confidence: 12.4% Identity: 27% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: CC0527-like Phyre2 PDB 3r7t chain A Region: 103 - 163 Aligned: 61 Modelled: 61 Confidence: 12.2% Identity: 13% PDB header:ligase Chain: A: PDB Molecule:adenylosuccinate synthetase; PDBTitle: crystal structure of adenylosuccinate synthetase from campylobacter2 jejuni Phyre2 PDB 2der chain A Region: 84 - 112 Aligned: 29 Modelled: 29 Confidence: 11.9% Identity: 10% PDB header:transferase/rna Chain: A: PDB Molecule:trna-specific 2-thiouridylase mnma; PDBTitle: cocrystal structure of an rna sulfuration enzyme mnma and2 trna-glu in the initial trna binding state Phyre2 PDB 2p4d chain A Region: 123 - 164 Aligned: 38 Modelled: 42 Confidence: 11.2% Identity: 3% PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase; PDBTitle: structure-assisted discovery of variola major h12 phosphatase inhibitors Phyre2 PDB 3p0k chain A Region: 45 - 52 Aligned: 8 Modelled: 8 Confidence: 11.1% Identity: 50% PDB header:oxidoreductase, viral protein Chain: A: PDB Molecule:sulfhydryl oxidase; PDBTitle: structure of baculovirus sulfhydryl oxidase ac92 Phyre2 PDB 1dj2 chain A Region: 103 - 163 Aligned: 61 Modelled: 61 Confidence: 10.7% Identity: 10% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nitrogenase iron protein-like Phyre2 PDB 1cp3 chain B Region: 70 - 167 Aligned: 73 Modelled: 86 Confidence: 10.6% Identity: 8% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:apopain; PDBTitle: crystal structure of the complex of apopain with the tetrapeptide2 inhibitor ace-dvad-fmc Phyre2 PDB 2dar chain A domain 2 Region: 42 - 51 Aligned: 10 Modelled: 10 Confidence: 10.4% Identity: 30% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1gxy chain A Region: 46 - 54 Aligned: 9 Modelled: 9 Confidence: 10.1% Identity: 33% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: Ecto-ART Phyre2 PDB 1zs3 chain A domain 1 Region: 91 - 156 Aligned: 62 Modelled: 66 Confidence: 10.1% Identity: 6% Fold: Ferritin-like Superfamily: Ferritin-like Family: Ferritin Phyre2 PDB 1dj3 chain A Region: 103 - 163 Aligned: 61 Modelled: 61 Confidence: 9.6% Identity: 11% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nitrogenase iron protein-like Phyre2 1 d1ryla_ 2 c3tekA_ 3 d1bbha_ 4 d2o3bb1 5 d1e85a_ 6 c1iweB_ 7 d1p9ba_ 8 d1gqaa_ 9 c2hmaA_ 10 d2o0qa1 11 c3r7tA_ 12 c2derA_ 13 c2p4dA_ 14 c3p0kA_ 15 d1dj2a_ 16 c1cp3B_ 17 d2dara2 18 d1gxya_ 19 d1zs3a1 20 d1dj3a_ 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

Detailed template information

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

1 d1ryla_ 100.0 98 Fold:Hypothetical protein yfbM Superfamily:Hypothetical protein yfbM Family:Hypothetical protein yfbM 2 c3tekA_ 21.6 4 PDB header:dna binding protein Chain: A: PDB Molecule:thermodbp-single stranded dna binding protein; PDBTitle: thermodbp: a non-canonical single-stranded dna binding protein with a2 novel structure and mechanism 3 d1bbha_ 21.3 7 Fold:Four-helical up-and-down bundle Superfamily:Cytochromes Family:Cytochrome c'-like 4 d2o3bb1 19.7 11 Fold:Nuclease A inhibitor (NuiA) Superfamily:Nuclease A inhibitor (NuiA) Family:Nuclease A inhibitor (NuiA) 5 d1e85a_ 18.5 12 Fold:Four-helical up-and-down bundle Superfamily:Cytochromes Family:Cytochrome c'-like 6 c1iweB_ 16.2 12 PDB header:ligase Chain: B: PDB Molecule:adenylosuccinate synthetase; PDBTitle: imp complex of the recombinant mouse-muscle2 adenylosuccinate synthetase 7 d1p9ba_ 16.2 12 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 8 d1gqaa_ 16.0 10 Fold:Four-helical up-and-down bundle Superfamily:Cytochromes Family:Cytochrome c'-like 9 c2hmaA_ 13.7 16 PDB header:transferase Chain: A: PDB Molecule:probable trna (5-methylaminomethyl-2-thiouridylate)- PDBTitle: the crystal structure of trna (5-methylaminomethyl-2-thiouridylate)-2 methyltransferase trmu from streptococcus pneumoniae 10 d2o0qa1 12.4 27 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:CC0527-like 11 c3r7tA_ 12.2 13 PDB header:ligase Chain: A: PDB Molecule:adenylosuccinate synthetase; PDBTitle: crystal structure of adenylosuccinate synthetase from campylobacter2 jejuni 12 c2derA_ 11.9 10 PDB header:transferase/rna Chain: A: PDB Molecule:trna-specific 2-thiouridylase mnma; PDBTitle: cocrystal structure of an rna sulfuration enzyme mnma and2 trna-glu in the initial trna binding state 13 c2p4dA_ 11.2 3 PDB header:hydrolase Chain: A: PDB Molecule:dual specificity protein phosphatase; PDBTitle: structure-assisted discovery of variola major h12 phosphatase inhibitors 14 c3p0kA_ 11.1 50 PDB header:oxidoreductase, viral protein Chain: A: PDB Molecule:sulfhydryl oxidase; PDBTitle: structure of baculovirus sulfhydryl oxidase ac92 15 d1dj2a_ 10.7 10 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 16 c1cp3B_ 10.6 8 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:apopain; PDBTitle: crystal structure of the complex of apopain with the tetrapeptide2 inhibitor ace-dvad-fmc 17 d2dara2 10.4 30 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 18 d1gxya_ 10.1 33 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:Ecto-ART 19 d1zs3a1 10.1 6 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ferritin 20 d1dj3a_ 9.6 11 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 21 c3a1yF_ not modelled 9.5 19 PDB header:ribosomal protein Chain: F: PDB Molecule:50s ribosomal protein p1 (l12p); PDBTitle: the structure of protein complex 22 c3k6gA_ not modelled 9.4 5 PDB header:protein binding Chain: A: PDB Molecule:telomeric repeat-binding factor 2-interacting protein 1; PDBTitle: crystal structure of rap1 and trf2 complex 23 d1iwea_ not modelled 8.8 12 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 24 c2fq8A_ not modelled 8.8 18 PDB header:unknown function Chain: A: PDB Molecule:2f; PDBTitle: nmr structure of 2f associated with lipid disc 25 c2fq5A_ not modelled 8.8 18 PDB header:unknown function Chain: A: PDB Molecule:peptide 2f; PDBTitle: nmr structure of 2f associated with lipid disc 26 d1w2ya_ not modelled 8.5 50 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:Type II deoxyuridine triphosphatase 27 d1j3sa_ not modelled 8.4 26 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 28 d1u5sb1 not modelled 8.4 33 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 29 d2o3la1 not modelled 8.0 14 Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like 30 d2j8wa1 not modelled 8.0 15 Fold:Four-helical up-and-down bundle Superfamily:Cytochromes Family:Cytochrome c'-like 31 c1kmcB_ not modelled 7.6 8 PDB header:apoptosis/hydrolase Chain: B: PDB Molecule:caspase-7; PDBTitle: crystal structure of the caspase-7 / xiap-bir2 complex 32 d1zfoa_ not modelled 7.5 40 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LASP-1 33 d1wejf_ not modelled 7.2 22 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 34 d1lfma_ not modelled 7.0 24 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 35 d2btoa2 not modelled 6.9 10 Fold:Bacillus chorismate mutase-like Superfamily:Tubulin C-terminal domain-like Family:Tubulin, C-terminal domain 36 d1umya_ not modelled 6.6 14 Fold:TIM beta/alpha-barrel Superfamily:Homocysteine S-methyltransferase Family:Homocysteine S-methyltransferase 37 c3kd4A_ not modelled 6.4 12 PDB header:hydrolase Chain: A: PDB Molecule:putative protease; PDBTitle: crystal structure of a putative protease (bdi_1141) from2 parabacteroides distasonis atcc 8503 at 2.00 a resolution 38 d1jdla_ not modelled 6.2 19 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 39 d1zuja1 not modelled 6.1 11 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ferritin 40 d1nw9b_ not modelled 6.1 14 Fold:Caspase-like Superfamily:Caspase-like Family:Caspase catalytic domain 41 c1z64A_ not modelled 6.0 23 PDB header:antimicrobial protein Chain: A: PDB Molecule:pleruocidin; PDBTitle: nmr solution structure of pleurocidin in dpc micelles 42 d1bccb1 not modelled 6.0 22 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like 43 c2funB_ not modelled 5.8 12 PDB header:apoptosis/hydrolase Chain: B: PDB Molecule:caspase-8; PDBTitle: alternative p35-caspase-8 complex 44 d2hh6a1 not modelled 5.7 5 Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like 45 c3l4oB_ not modelled 5.7 21 PDB header:oxidoreductase/electron transport Chain: B: PDB Molecule:methylamine utilization protein maug; PDBTitle: crystal structure of the maug/pre-methylamine dehydrogenase complex2 after treatment with hydrogen peroxide 46 d1cxca_ not modelled 5.7 10 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 47 d1h32b_ not modelled 5.5 12 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 48 d1ccra_ not modelled 5.5 29 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 49 c3n1bA_ not modelled 5.4 15 PDB header:transport protein Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 54; PDBTitle: c-terminal domain of vps54 subunit of the garp complex 50 c3qfqE_ not modelled 5.4 26 PDB header:dna binding protein/dna Chain: E: PDB Molecule:large t antigen; PDBTitle: asymmetric assembly of merkel cell polyomavirus large t-antigen origin2 binding domains at the viral origin

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