Secondary structure and disorder prediction

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Sequence		M	N	I	E	E	L	K	K	Q	A	E	T	E	I	A	D	F	I	A	Q	K	I	A	E	L	N	K	N	T	G	K	E	V	S	E	I	R	F	T	A	R	E	K	M	T	G	L	E	S	Y	D	V	K	I	K	I	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 1avo chain A Region: 4 - 26 Aligned: 23 Modelled: 23 Confidence: 77.8% Identity: 30% PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) Phyre2 PDB 2a7u chain A Region: 12 - 26 Aligned: 15 Modelled: 15 Confidence: 42.5% Identity: 53% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase alpha chain; PDBTitle: nmr solution structure of the e.coli f-atpase delta subunit n-terminal2 domain in complex with alpha subunit n-terminal 22 residues Phyre2 PDB 1div chain A domain 1 Region: 19 - 56 Aligned: 38 Modelled: 38 Confidence: 27.3% Identity: 21% Fold: Ribosomal protein L9 C-domain Superfamily: Ribosomal protein L9 C-domain Family: Ribosomal protein L9 C-domain Phyre2 PDB 1uww chain A Region: 35 - 56 Aligned: 22 Modelled: 22 Confidence: 14.9% Identity: 41% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Family 28 carbohydrate binding module, CBM28 Phyre2 PDB 2j01 chain I domain 1 Region: 19 - 56 Aligned: 38 Modelled: 38 Confidence: 14.3% Identity: 24% Fold: Ribosomal protein L9 C-domain Superfamily: Ribosomal protein L9 C-domain Family: Ribosomal protein L9 C-domain Phyre2 PDB 2x43 chain S Region: 8 - 37 Aligned: 30 Modelled: 30 Confidence: 10.5% Identity: 37% PDB header:membrane protein Chain: S: PDB Molecule:sherp; PDBTitle: structural basis of molecular recognition by sherp at membrane2 surfaces Phyre2 PDB 2kwy chain A Region: 3 - 28 Aligned: 26 Modelled: 26 Confidence: 10.1% Identity: 42% PDB header:proton transport Chain: A: PDB Molecule:v-type proton atpase subunit g; PDBTitle: structure of g61-101 Phyre2 PDB 1x6m chain A Region: 35 - 51 Aligned: 15 Modelled: 17 Confidence: 8.3% Identity: 60% Fold: Mss4-like Superfamily: Mss4-like Family: Glutathione-dependent formaldehyde-activating enzyme, Gfa Phyre2 PDB 3iwf chain A Region: 8 - 35 Aligned: 28 Modelled: 28 Confidence: 8.0% Identity: 25% PDB header:transcription regulator Chain: A: PDB Molecule:transcription regulator rpir family; PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a Phyre2 PDB 1ybz chain A domain 1 Region: 18 - 33 Aligned: 16 Modelled: 16 Confidence: 6.5% Identity: 31% Fold: Chorismate mutase II Superfamily: Chorismate mutase II Family: Dimeric chorismate mutase Phyre2 PDB 1rep chain C domain 2 Region: 28 - 43 Aligned: 16 Modelled: 16 Confidence: 6.4% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 2nra chain C domain 2 Region: 27 - 39 Aligned: 13 Modelled: 13 Confidence: 6.4% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 2qbv chain A Region: 18 - 33 Aligned: 16 Modelled: 16 Confidence: 5.8% Identity: 13% PDB header:isomerase Chain: A: PDB Molecule:chorismate mutase; PDBTitle: crystal structure of intracellular chorismate mutase from2 mycobacterium tuberculosis Phyre2 PDB 2k88 chain A Region: 7 - 27 Aligned: 21 Modelled: 21 Confidence: 5.5% Identity: 38% PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase Phyre2 1 c1avoA_ 2 c2a7uA_ 3 d1diva1 4 d1uwwa_ 5 d2j01i1 6 c2x43S_ 7 c2kwyA_ 8 d1x6ma_ 9 c3iwfA_ 10 d1ybza1 11 d1repc2 12 d2nrac2 13 c2qbvA_ 14 c2k88A_

Detailed template information

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

1 c1avoA_ 77.8 30 PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) 2 c2a7uA_ 42.5 53 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase alpha chain; PDBTitle: nmr solution structure of the e.coli f-atpase delta subunit n-terminal2 domain in complex with alpha subunit n-terminal 22 residues 3 d1diva1 27.3 21 Fold:Ribosomal protein L9 C-domain Superfamily:Ribosomal protein L9 C-domain Family:Ribosomal protein L9 C-domain 4 d1uwwa_ 14.9 41 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 28 carbohydrate binding module, CBM28 5 d2j01i1 14.3 24 Fold:Ribosomal protein L9 C-domain Superfamily:Ribosomal protein L9 C-domain Family:Ribosomal protein L9 C-domain 6 c2x43S_ 10.5 37 PDB header:membrane protein Chain: S: PDB Molecule:sherp; PDBTitle: structural basis of molecular recognition by sherp at membrane2 surfaces 7 c2kwyA_ 10.1 42 PDB header:proton transport Chain: A: PDB Molecule:v-type proton atpase subunit g; PDBTitle: structure of g61-101 8 d1x6ma_ 8.3 60 Fold:Mss4-like Superfamily:Mss4-like Family:Glutathione-dependent formaldehyde-activating enzyme, Gfa 9 c3iwfA_ 8.0 25 PDB header:transcription regulator Chain: A: PDB Molecule:transcription regulator rpir family; PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a 10 d1ybza1 6.5 31 Fold:Chorismate mutase II Superfamily:Chorismate mutase II Family:Dimeric chorismate mutase 11 d1repc2 6.4 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 12 d2nrac2 6.4 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 13 c2qbvA_ 5.8 13 PDB header:isomerase Chain: A: PDB Molecule:chorismate mutase; PDBTitle: crystal structure of intracellular chorismate mutase from2 mycobacterium tuberculosis 14 c2k88A_ 5.5 38 PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase

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