Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	K	K	S	E	F	E	R	G	D	I	V	L	V	G	F	D	P	A	S	G	H	E	Q	Q	G	A	G	R	P	A	L	V	L	S	V	Q	A	F	N	Q	L	G	M	T	L	V	A	P	I	T	Q	G	G	N	F	A	R	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?														?	?	?	?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.
Sequence		A	G	F	S	V	P	L	H	C	E	E	G	D	V	H	G	V	V	L	V	N	Q	V	R	M	M	D	L	H	A	R	L	A	K	R	I	G	L	A	A	D	E	V	V	E	E	A	L	L	R	L	Q	A	V	V	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 1m1f chain A Region: 7 - 115 Aligned: 105 Modelled: 109 Confidence: 100.0% Identity: 40% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 1ub4 chain A Region: 2 - 115 Aligned: 101 Modelled: 114 Confidence: 100.0% Identity: 31% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 1ne8 chain A Region: 5 - 116 Aligned: 110 Modelled: 112 Confidence: 100.0% Identity: 25% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 3jrz chain A Region: 9 - 115 Aligned: 95 Modelled: 107 Confidence: 97.2% Identity: 9% PDB header:toxin Chain: A: PDB Molecule:ccdb; PDBTitle: ccdbvfi-formii-ph5.6 Phyre2 PDB 3vub chain A Region: 26 - 116 Aligned: 89 Modelled: 91 Confidence: 96.7% Identity: 7% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: CcdB Phyre2 PDB 2l89 chain A Region: 2 - 116 Aligned: 95 Modelled: 104 Confidence: 83.5% Identity: 21% PDB header:protein binding Chain: A: PDB Molecule:pwwp domain-containing protein 1; PDBTitle: solution structure of pdp1 pwwp domain reveals its unique binding2 sites for methylated h4k20 and dna Phyre2 PDB 1h3z chain A Region: 2 - 116 Aligned: 97 Modelled: 115 Confidence: 83.1% Identity: 9% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: PWWP domain Phyre2 PDB 3llr chain A Region: 5 - 114 Aligned: 88 Modelled: 97 Confidence: 35.7% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:dna (cytosine-5)-methyltransferase 3a; PDBTitle: crystal structure of the pwwp domain of human dna (cytosine-5-)-2 methyltransferase 3 alpha Phyre2 PDB 2gfu chain A Region: 3 - 114 Aligned: 92 Modelled: 100 Confidence: 23.1% Identity: 20% PDB header:dna binding protein Chain: A: PDB Molecule:dna mismatch repair protein msh6; PDBTitle: nmr solution structure of the pwwp domain of mismatch2 repair protein hmsh6 Phyre2 PDB 3mxu chain A Region: 10 - 52 Aligned: 38 Modelled: 43 Confidence: 21.5% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: crystal structure of glycine cleavage system protein h from bartonella2 henselae Phyre2 PDB 2jys chain A Region: 8 - 17 Aligned: 10 Modelled: 10 Confidence: 12.8% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:protease/reverse transcriptase; PDBTitle: solution structure of simian foamy virus (mac) protease Phyre2 PDB 1zak chain A domain 2 Region: 4 - 28 Aligned: 25 Modelled: 25 Confidence: 12.0% Identity: 16% Fold: Rubredoxin-like Superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain Family: Microbial and mitochondrial ADK, insert "zinc finger" domain Phyre2 PDB 2nlu chain A domain 1 Region: 2 - 110 Aligned: 85 Modelled: 95 Confidence: 10.9% Identity: 11% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: PWWP domain Phyre2 PDB 2jns chain A Region: 85 - 112 Aligned: 28 Modelled: 28 Confidence: 10.5% Identity: 14% PDB header:unknown function Chain: A: PDB Molecule:bromodomain-containing protein 4; PDBTitle: solution structure of the bromodomain-containing protein 42 et domain Phyre2 PDB 1hpc chain A Region: 10 - 39 Aligned: 29 Modelled: 30 Confidence: 8.6% Identity: 31% Fold: Barrel-sandwich hybrid Superfamily: Single hybrid motif Family: Biotinyl/lipoyl-carrier proteins and domains Phyre2 PDB 2eaa chain B Region: 6 - 36 Aligned: 31 Modelled: 31 Confidence: 7.4% Identity: 6% PDB header:plant protein Chain: B: PDB Molecule:7s globulin-3; PDBTitle: crystal structure of adzuki bean 7s globulin-3 Phyre2 PDB 2daq chain A domain 1 Region: 6 - 114 Aligned: 90 Modelled: 109 Confidence: 7.2% Identity: 20% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: PWWP domain Phyre2 PDB 1kp0 chain A domain 2 Region: 3 - 34 Aligned: 32 Modelled: 32 Confidence: 6.5% Identity: 19% Fold: Creatinase/aminopeptidase Superfamily: Creatinase/aminopeptidase Family: Creatinase/aminopeptidase Phyre2 PDB 1zzo chain A domain 1 Region: 86 - 111 Aligned: 26 Modelled: 26 Confidence: 6.5% Identity: 15% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Glutathione peroxidase-like Phyre2 PDB 1b12 chain A Region: 5 - 22 Aligned: 18 Modelled: 18 Confidence: 6.1% Identity: 28% Fold: LexA/Signal peptidase Superfamily: LexA/Signal peptidase Family: Type 1 signal peptidase Phyre2 1 d1m1fa_ 2 d1ub4a_ 3 d1ne8a_ 4 c3jrzA_ 5 d3vuba_ 6 c2l89A_ 7 d1h3za_ 8 c3llrA_ 9 c2gfuA_ 10 c3mxuA_ 11 c2jysA_ 12 d1zaka2 13 d2nlua1 14 c2jnsA_ 15 d1hpca_ 16 c2eaaB_ 17 d2daqa1 18 d1kp0a2 19 d1zzoa1 20 d1b12a_

Detailed template information

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

1 d1m1fa_ 100.0 40 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 2 d1ub4a_ 100.0 31 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 3 d1ne8a_ 100.0 25 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 4 c3jrzA_ 97.2 9 PDB header:toxin Chain: A: PDB Molecule:ccdb; PDBTitle: ccdbvfi-formii-ph5.6 5 d3vuba_ 96.7 7 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:CcdB 6 c2l89A_ 83.5 21 PDB header:protein binding Chain: A: PDB Molecule:pwwp domain-containing protein 1; PDBTitle: solution structure of pdp1 pwwp domain reveals its unique binding2 sites for methylated h4k20 and dna 7 d1h3za_ 83.1 9 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 8 c3llrA_ 35.7 15 PDB header:transferase Chain: A: PDB Molecule:dna (cytosine-5)-methyltransferase 3a; PDBTitle: crystal structure of the pwwp domain of human dna (cytosine-5-)-2 methyltransferase 3 alpha 9 c2gfuA_ 23.1 20 PDB header:dna binding protein Chain: A: PDB Molecule:dna mismatch repair protein msh6; PDBTitle: nmr solution structure of the pwwp domain of mismatch2 repair protein hmsh6 10 c3mxuA_ 21.5 26 PDB header:oxidoreductase Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: crystal structure of glycine cleavage system protein h from bartonella2 henselae 11 c2jysA_ 12.8 20 PDB header:hydrolase Chain: A: PDB Molecule:protease/reverse transcriptase; PDBTitle: solution structure of simian foamy virus (mac) protease 12 d1zaka2 12.0 16 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 13 d2nlua1 10.9 11 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 14 c2jnsA_ 10.5 14 PDB header:unknown function Chain: A: PDB Molecule:bromodomain-containing protein 4; PDBTitle: solution structure of the bromodomain-containing protein 42 et domain 15 d1hpca_ 8.6 31 Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains 16 c2eaaB_ 7.4 6 PDB header:plant protein Chain: B: PDB Molecule:7s globulin-3; PDBTitle: crystal structure of adzuki bean 7s globulin-3 17 d2daqa1 7.2 20 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 18 d1kp0a2 6.5 19 Fold:Creatinase/aminopeptidase Superfamily:Creatinase/aminopeptidase Family:Creatinase/aminopeptidase 19 d1zzoa1 6.5 15 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like 20 d1b12a_ 6.1 28 Fold:LexA/Signal peptidase Superfamily:LexA/Signal peptidase Family:Type 1 signal peptidase

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