Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	T	Q	Q	I	I	S	S	E	L	E	V	L	K	K	H	I	D	S	G	D	I	R	I	P	S	L	W	Q	G	L	K	P	G	L	I	I	M	G	W	M	I	F	C	P	L	L	M	S	F	L	I	T	Q	K	T	S	E	T
Secondary structure
SS confidence
Disorder		?	?	?																		?	?																																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	T	A	V	L	A	G	G	W	L	G	L	I	I	L	F	I	V	A	R	I	R	M	L	Y	F	S	L	P	E	E	F	L	K	T	S	S	V	M	R	V	I	S	S	K	L	K	V	Y	F	I	V	Y	M	G	V	I	F	L	W
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.
Sequence		S	F	L	G	G	G	I	I	Y	G	F	G	A	I	L	V	T	V	I	M	A	F	L	I	Q	L	D	I	G	R	Y	Q	F	V	G	V	I	D	A	I	N	S	Y	V	K	N	K	K	L	S	R	V	K
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 2rbd chain B Region: 4 - 27 Aligned: 24 Modelled: 24 Confidence: 25.9% Identity: 21% PDB header:structural protein Chain: B: PDB Molecule:bh2358 protein; PDBTitle: crystal structure of a putative spore coat protein (bh2358) from2 bacillus halodurans c-125 at 1.54 a resolution Phyre2 PDB 3d8l chain B Region: 1 - 41 Aligned: 41 Modelled: 41 Confidence: 22.8% Identity: 20% PDB header:viral protein Chain: B: PDB Molecule:orf12; PDBTitle: crystal structure of orf12 from the lactococcus lactis bacteriophage2 p2 Phyre2 PDB 1uer chain A domain 1 Region: 28 - 35 Aligned: 8 Modelled: 8 Confidence: 18.6% Identity: 25% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1uz3 chain A domain 1 Region: 148 - 173 Aligned: 26 Modelled: 26 Confidence: 13.1% Identity: 12% Fold: ENT-like Superfamily: ENT-like Family: Emsy N terminal (ENT) domain-like Phyre2 PDB 1zke chain A domain 1 Region: 6 - 19 Aligned: 14 Modelled: 14 Confidence: 12.0% Identity: 43% Fold: ROP-like Superfamily: HP1531-like Family: HP1531-like Phyre2 PDB 3iz5 chain T Region: 11 - 29 Aligned: 19 Modelled: 19 Confidence: 11.5% Identity: 16% PDB header:ribosome Chain: T: PDB Molecule:60s ribosomal protein l19 (l19e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 2xoz chain B Region: 10 - 30 Aligned: 21 Modelled: 21 Confidence: 10.1% Identity: 14% PDB header:ligase Chain: B: PDB Molecule:e3 ubiquitin-protein ligase chfr; PDBTitle: c-terminal cysteine rich domain of human chfr bound to amp Phyre2 PDB 1p1j chain A domain 1 Region: 150 - 172 Aligned: 23 Modelled: 23 Confidence: 9.4% Identity: 13% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1vko chain A domain 1 Region: 150 - 172 Aligned: 23 Modelled: 23 Confidence: 8.6% Identity: 13% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1vko chain A Region: 150 - 172 Aligned: 23 Modelled: 23 Confidence: 8.5% Identity: 13% PDB header:isomerase Chain: A: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: crystal structure of inositol-3-phosphate synthase (ce21227) from2 caenorhabditis elegans at 2.30 a resolution Phyre2 PDB 1hcu chain A Region: 20 - 44 Aligned: 25 Modelled: 25 Confidence: 8.3% Identity: 20% Fold: alpha/alpha toroid Superfamily: Seven-hairpin glycosidases Family: Class I alpha-1;2-mannosidase, catalytic domain Phyre2 PDB 1p1h chain D Region: 150 - 172 Aligned: 23 Modelled: 23 Confidence: 8.0% Identity: 13% PDB header:isomerase Chain: D: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: crystal structure of the 1l-myo-inositol/nad+ complex Phyre2 PDB 1ma1 chain A domain 1 Region: 28 - 35 Aligned: 8 Modelled: 8 Confidence: 7.7% Identity: 25% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1dxs chain A Region: 86 - 95 Aligned: 10 Modelled: 10 Confidence: 7.0% Identity: 30% Fold: SAM domain-like Superfamily: SAM/Pointed domain Family: SAM (sterile alpha motif) domain Phyre2 PDB 1b77 chain A domain 1 Region: 147 - 170 Aligned: 24 Modelled: 24 Confidence: 7.0% Identity: 13% Fold: DNA clamp Superfamily: DNA clamp Family: DNA polymerase processivity factor Phyre2 PDB 2pqr chain D Region: 22 - 39 Aligned: 18 Modelled: 18 Confidence: 6.9% Identity: 33% PDB header:apoptosis Chain: D: PDB Molecule:wd repeat protein ykr036c; PDBTitle: crystal structure of yeast fis1 complexed with a fragment of yeast2 caf4 Phyre2 PDB 3izc chain T Region: 12 - 29 Aligned: 18 Modelled: 18 Confidence: 6.6% Identity: 17% PDB header:ribosome Chain: T: PDB Molecule:60s ribosomal protein rpl19 (l19e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 1n0f chain F Region: 86 - 95 Aligned: 10 Modelled: 10 Confidence: 6.1% Identity: 30% PDB header:biosynthetic protein Chain: F: PDB Molecule:protein mraz; PDBTitle: crystal structure of a cell division and cell wall2 biosynthesis protein upf0040 from mycoplasma pneumoniae:3 indication of a novel fold with a possible new conserved4 sequence motif Phyre2 PDB 1bsm chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 5.6% Identity: 22% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 2a5y chain B domain 1 Region: 22 - 34 Aligned: 13 Modelled: 13 Confidence: 5.6% Identity: 38% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: CED-4 C-terminal domain-like Phyre2 1 c2rbdB_ 2 c3d8lB_ 3 d1uera1 4 d1uz3a1 5 d1zkea1 6 c3iz5t_ 7 c2xozB_ 8 d1p1ja1 9 d1vkoa1 10 c1vkoA_ 11 d1hcua_ 12 c1p1hD_ 13 d1ma1a1 14 d1dxsa_ 15 d1b77a1 16 c2pqrD_ 17 c3izct_ 18 c1n0fF_ 19 d1bsma1 20 d2a5yb1 21

Detailed template information

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

1 c2rbdB_ 25.9 21 PDB header:structural protein Chain: B: PDB Molecule:bh2358 protein; PDBTitle: crystal structure of a putative spore coat protein (bh2358) from2 bacillus halodurans c-125 at 1.54 a resolution 2 c3d8lB_ 22.8 20 PDB header:viral protein Chain: B: PDB Molecule:orf12; PDBTitle: crystal structure of orf12 from the lactococcus lactis bacteriophage2 p2 3 d1uera1 18.6 25 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 4 d1uz3a1 13.1 12 Fold:ENT-like Superfamily:ENT-like Family:Emsy N terminal (ENT) domain-like 5 d1zkea1 12.0 43 Fold:ROP-like Superfamily:HP1531-like Family:HP1531-like 6 c3iz5t_ 11.5 16 PDB header:ribosome Chain: T: PDB Molecule:60s ribosomal protein l19 (l19e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 7 c2xozB_ 10.1 14 PDB header:ligase Chain: B: PDB Molecule:e3 ubiquitin-protein ligase chfr; PDBTitle: c-terminal cysteine rich domain of human chfr bound to amp 8 d1p1ja1 9.4 13 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 9 d1vkoa1 8.6 13 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 10 c1vkoA_ 8.5 13 PDB header:isomerase Chain: A: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: crystal structure of inositol-3-phosphate synthase (ce21227) from2 caenorhabditis elegans at 2.30 a resolution 11 d1hcua_ 8.3 20 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 12 c1p1hD_ 8.0 13 PDB header:isomerase Chain: D: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: crystal structure of the 1l-myo-inositol/nad+ complex 13 d1ma1a1 7.7 25 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 14 d1dxsa_ 7.0 30 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 15 d1b77a1 7.0 13 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 16 c2pqrD_ 6.9 33 PDB header:apoptosis Chain: D: PDB Molecule:wd repeat protein ykr036c; PDBTitle: crystal structure of yeast fis1 complexed with a fragment of yeast2 caf4 17 c3izct_ 6.6 17 PDB header:ribosome Chain: T: PDB Molecule:60s ribosomal protein rpl19 (l19e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 18 c1n0fF_ 6.1 30 PDB header:biosynthetic protein Chain: F: PDB Molecule:protein mraz; PDBTitle: crystal structure of a cell division and cell wall2 biosynthesis protein upf0040 from mycoplasma pneumoniae:3 indication of a novel fold with a possible new conserved4 sequence motif 19 d1bsma1 5.6 22 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 20 d2a5yb1 5.6 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CED-4 C-terminal domain-like 21 d1ug3a1 not modelled 5.5 19 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:MIF4G domain-like

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