Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	R	K	N	K	W	L	R	F	Q	T	V	C	R	Y	I	P	L	S	L	K	N	H	N	R	L	V	I	F	V	C	Q	R	I	E	W	R	Y	I	F	S	T	N	T	G	H	P	L	K	N	T	C	E	M	T	G	T	D	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.
Sequence		S	T	D	G	L	M	R	R	Y	V	T	G	G	N	N	Q	W	H	T	V	A	S	L	H	M	T	I	M	M	N	R	I	G	T	V	A	D	R	Q	P	K	A	R	K	V	K	H	G	E	M	T
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 3dw8 chain B Region: 35 - 75 Aligned: 39 Modelled: 41 Confidence: 22.0% Identity: 15% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:serine/threonine-protein phosphatase 2a 55 kda regulatory PDBTitle: structure of a protein phosphatase 2a holoenzyme with b55 subunit Phyre2 PDB 1jl3 chain A Region: 25 - 32 Aligned: 8 Modelled: 8 Confidence: 18.7% Identity: 38% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: Phosphotyrosine protein phosphatases I Family: Low-molecular-weight phosphotyrosine protein phosphatases Phyre2 PDB 3nct chain C Region: 10 - 32 Aligned: 19 Modelled: 23 Confidence: 17.3% Identity: 32% PDB header:dna binding protein, chaperone Chain: C: PDB Molecule:protein psib; PDBTitle: x-ray crystal structure of the bacterial conjugation factor psib, a2 negative regulator of reca Phyre2 PDB 2krc chain A Region: 58 - 77 Aligned: 17 Modelled: 20 Confidence: 16.2% Identity: 35% PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase subunit delta; PDBTitle: solution structure of the n-terminal domain of bacillus2 subtilis delta subunit of rna polymerase Phyre2 PDB 2noc chain A domain 1 Region: 72 - 83 Aligned: 12 Modelled: 12 Confidence: 14.8% Identity: 25% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 2pxg chain A Region: 37 - 67 Aligned: 31 Modelled: 31 Confidence: 9.2% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein; PDBTitle: nmr solution structure of omla Phyre2 PDB 2jv5 chain A Region: 43 - 51 Aligned: 9 Modelled: 9 Confidence: 8.5% Identity: 33% PDB header:protein binding Chain: A: PDB Molecule:reticulon-4; PDBTitle: nogo54 Phyre2 PDB 2kxx chain A Region: 36 - 69 Aligned: 33 Modelled: 34 Confidence: 6.7% Identity: 24% PDB header:protein binding Chain: A: PDB Molecule:small protein a; PDBTitle: nmr structure of escherichia coli bame, a lipoprotein component of the2 beta-barrel assembly machinery complex Phyre2 PDB 2igi chain A domain 1 Region: 53 - 67 Aligned: 15 Modelled: 15 Confidence: 6.6% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 1y8a chain A Region: 38 - 57 Aligned: 20 Modelled: 20 Confidence: 6.5% Identity: 30% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1437; PDBTitle: structure of gene product af1437 from archaeoglobus fulgidus Phyre2 PDB 2ko2 chain A Region: 43 - 51 Aligned: 9 Modelled: 9 Confidence: 6.4% Identity: 33% PDB header:membrane protein Chain: A: PDB Molecule:reticulon-4; PDBTitle: nogo66 Phyre2 PDB 1x9d chain A Region: 39 - 50 Aligned: 11 Modelled: 12 Confidence: 6.4% Identity: 55% PDB header:hydrolase Chain: A: PDB Molecule:endoplasmic reticulum mannosyl-oligosaccharide 1, PDBTitle: crystal structure of human class i alpha-1,2-mannosidase in2 complex with thio-disaccharide substrate analogue Phyre2 PDB 1x9d chain A domain 1 Region: 39 - 50 Aligned: 11 Modelled: 12 Confidence: 6.4% Identity: 55% Fold: alpha/alpha toroid Superfamily: Seven-hairpin glycosidases Family: Class I alpha-1;2-mannosidase, catalytic domain Phyre2 PDB 2ker chain A Region: 37 - 44 Aligned: 8 Modelled: 8 Confidence: 6.0% Identity: 50% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:alpha-amylase inhibitor z-2685; PDBTitle: alpha-amylase inhibitor parvulustat (z-2685) from2 streptomyces parvulus Phyre2 PDB 1ok0 chain A Region: 37 - 44 Aligned: 8 Modelled: 8 Confidence: 5.9% Identity: 50% Fold: alpha-Amylase inhibitor tendamistat Superfamily: alpha-Amylase inhibitor tendamistat Family: alpha-Amylase inhibitor tendamistat Phyre2 PDB 3asi chain A Region: 74 - 81 Aligned: 8 Modelled: 8 Confidence: 5.8% Identity: 63% PDB header:cell adhesion Chain: A: PDB Molecule:neurexin-1-alpha; PDBTitle: alpha-neurexin-1 ectodomain fragment; lns5-egf3-lns6 Phyre2 PDB 1hcu chain A Region: 38 - 50 Aligned: 12 Modelled: 13 Confidence: 5.5% Identity: 33% Fold: alpha/alpha toroid Superfamily: Seven-hairpin glycosidases Family: Class I alpha-1;2-mannosidase, catalytic domain Phyre2 PDB 3d3r chain A Region: 8 - 18 Aligned: 11 Modelled: 11 Confidence: 5.5% Identity: 55% PDB header:chaperone Chain: A: PDB Molecule:hydrogenase assembly chaperone hypc/hupf; PDBTitle: crystal structure of the hydrogenase assembly chaperone hypc/hupf2 family protein from shewanella oneidensis mr-1 Phyre2 PDB 1p2z chain A domain 2 Region: 30 - 44 Aligned: 15 Modelled: 15 Confidence: 5.2% Identity: 53% Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily: Group II dsDNA viruses VP Family: Adenovirus hexon Phyre2 PDB 1hnf chain A domain 2 Region: 52 - 60 Aligned: 9 Modelled: 9 Confidence: 5.2% Identity: 78% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: C2 set domains Phyre2 1 c3dw8B_ 2 d1jl3a_ 3 c3nctC_ 4 c2krcA_ 5 d2noca1 6 c2pxgA_ 7 c2jv5A_ 8 c2kxxA_ 9 d2igia1 10 c1y8aA_ 11 c2ko2A_ 12 c1x9dA_ 13 d1x9da1 14 c2kerA_ 15 d1ok0a_ 16 c3asiA_ 17 d1hcua_ 18 c3d3rA_ 19 d1p2za2 20 d1hnfa2 21 22

Detailed template information

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

1 c3dw8B_ 22.0 15 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:serine/threonine-protein phosphatase 2a 55 kda regulatory PDBTitle: structure of a protein phosphatase 2a holoenzyme with b55 subunit 2 d1jl3a_ 18.7 38 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 3 c3nctC_ 17.3 32 PDB header:dna binding protein, chaperone Chain: C: PDB Molecule:protein psib; PDBTitle: x-ray crystal structure of the bacterial conjugation factor psib, a2 negative regulator of reca 4 c2krcA_ 16.2 35 PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase subunit delta; PDBTitle: solution structure of the n-terminal domain of bacillus2 subtilis delta subunit of rna polymerase 5 d2noca1 14.8 25 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 6 c2pxgA_ 9.2 13 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein; PDBTitle: nmr solution structure of omla 7 c2jv5A_ 8.5 33 PDB header:protein binding Chain: A: PDB Molecule:reticulon-4; PDBTitle: nogo54 8 c2kxxA_ 6.7 24 PDB header:protein binding Chain: A: PDB Molecule:small protein a; PDBTitle: nmr structure of escherichia coli bame, a lipoprotein component of the2 beta-barrel assembly machinery complex 9 d2igia1 6.6 40 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 10 c1y8aA_ 6.5 30 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1437; PDBTitle: structure of gene product af1437 from archaeoglobus fulgidus 11 c2ko2A_ 6.4 33 PDB header:membrane protein Chain: A: PDB Molecule:reticulon-4; PDBTitle: nogo66 12 c1x9dA_ 6.4 55 PDB header:hydrolase Chain: A: PDB Molecule:endoplasmic reticulum mannosyl-oligosaccharide 1, PDBTitle: crystal structure of human class i alpha-1,2-mannosidase in2 complex with thio-disaccharide substrate analogue 13 d1x9da1 6.4 55 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 14 c2kerA_ 6.0 50 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:alpha-amylase inhibitor z-2685; PDBTitle: alpha-amylase inhibitor parvulustat (z-2685) from2 streptomyces parvulus 15 d1ok0a_ 5.9 50 Fold:alpha-Amylase inhibitor tendamistat Superfamily:alpha-Amylase inhibitor tendamistat Family:alpha-Amylase inhibitor tendamistat 16 c3asiA_ 5.8 63 PDB header:cell adhesion Chain: A: PDB Molecule:neurexin-1-alpha; PDBTitle: alpha-neurexin-1 ectodomain fragment; lns5-egf3-lns6 17 d1hcua_ 5.5 33 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 18 c3d3rA_ 5.5 55 PDB header:chaperone Chain: A: PDB Molecule:hydrogenase assembly chaperone hypc/hupf; PDBTitle: crystal structure of the hydrogenase assembly chaperone hypc/hupf2 family protein from shewanella oneidensis mr-1 19 d1p2za2 5.2 53 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Group II dsDNA viruses VP Family:Adenovirus hexon 20 d1hnfa2 5.2 78 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:C2 set domains 21 d2b5ib1 not modelled 5.1 36 Fold:Immunoglobulin-like beta-sandwich Superfamily:Fibronectin type III Family:Fibronectin type III 22 c3cxjB_ not modelled 5.0 32 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from2 methanothermobacter thermautotrophicus

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