Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	I	A	A	I	S	L	I	S	I	F	I	M	S	G	C	A	V	H	N	D	E	T	S	I	G	K	F	G	L	A	Y	K	S	N	I	Q	R	K	L	D	N	Q	Y	Y	T	E	A	E	A	S	L	A	R	G	R	I	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																															?			?	?									?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.
Sequence		G	A	E	N	I	V	K	N	D	A	T	H	F	C	V	T	Q	G	K	K	M	Q	I	V	E	L	K	T	E	G	V	G	L	H	G	V	A	R	L	T	F	K	C	G	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 2jya chain A Region: 67 - 87 Aligned: 21 Modelled: 21 Confidence: 25.8% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1810; PDBTitle: nmr solution structure of protein atu1810 from agrobacterium2 tumefaciens. northeast structural genomics consortium target atr23,3 ontario centre for structural proteomics target atc1776 Phyre2 PDB 1dlj chain A domain 3 Region: 22 - 38 Aligned: 17 Modelled: 17 Confidence: 13.5% Identity: 29% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: UDP-glucose/GDP-mannose dehydrogenase C-terminal domain Family: UDP-glucose/GDP-mannose dehydrogenase C-terminal domain Phyre2 PDB 2h26 chain A domain 2 Region: 15 - 37 Aligned: 23 Modelled: 23 Confidence: 9.3% Identity: 17% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 2po6 chain A domain 2 Region: 15 - 37 Aligned: 23 Modelled: 23 Confidence: 7.5% Identity: 30% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 2fik chain A domain 2 Region: 15 - 37 Aligned: 23 Modelled: 23 Confidence: 7.4% Identity: 17% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 1f32 chain A Region: 17 - 28 Aligned: 12 Modelled: 12 Confidence: 7.1% Identity: 33% Fold: Pepsin inhibitor-3 Superfamily: Pepsin inhibitor-3 Family: Pepsin inhibitor-3 Phyre2 PDB 1x38 chain A domain 2 Region: 29 - 36 Aligned: 8 Modelled: 8 Confidence: 6.9% Identity: 25% Fold: Flavodoxin-like Superfamily: Beta-D-glucan exohydrolase, C-terminal domain Family: Beta-D-glucan exohydrolase, C-terminal domain Phyre2 PDB 1k8i chain B Region: 14 - 37 Aligned: 24 Modelled: 24 Confidence: 6.8% Identity: 13% PDB header:immune system Chain: B: PDB Molecule:mhc class ii h2-m beta 2 chain; PDBTitle: crystal structure of mouse h2-dm Phyre2 PDB 2p24 chain A Region: 17 - 37 Aligned: 21 Modelled: 21 Confidence: 6.7% Identity: 19% PDB header:immune system Chain: A: PDB Molecule:h-2 class ii histocompatibility antigen, a-u alpha chain; PDBTitle: i-au/mbp125-135 Phyre2 PDB 1vqo chain E domain 2 Region: 3 - 49 Aligned: 33 Modelled: 33 Confidence: 5.5% Identity: 24% Fold: Ribosomal protein L6 Superfamily: Ribosomal protein L6 Family: Ribosomal protein L6 Phyre2 PDB 1j0y chain D Region: 97 - 105 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 44% PDB header:hydrolase Chain: D: PDB Molecule:beta-amylase; PDBTitle: beta-amylase from bacillus cereus var. mycoides in complex2 with glucose Phyre2 PDB 3dbx chain A Region: 15 - 37 Aligned: 23 Modelled: 23 Confidence: 5.2% Identity: 13% PDB header:immune system Chain: A: PDB Molecule:cd1-2 antigen; PDBTitle: structure of chicken cd1-2 with bound fatty acid Phyre2 1 c2jyaA_ 2 d1dlja3 3 d2h26a2 4 d2po6a2 5 d2fika2 6 d1f32a_ 7 d1x38a2 8 c1k8iB_ 9 c2p24A_ 10 d1vqoe2 11 c1j0yD_ 12 c3dbxA_

Detailed template information

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

1 c2jyaA_ 25.8 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1810; PDBTitle: nmr solution structure of protein atu1810 from agrobacterium2 tumefaciens. northeast structural genomics consortium target atr23,3 ontario centre for structural proteomics target atc1776 2 d1dlja3 13.5 29 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:UDP-glucose/GDP-mannose dehydrogenase C-terminal domain Family:UDP-glucose/GDP-mannose dehydrogenase C-terminal domain 3 d2h26a2 9.3 17 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 4 d2po6a2 7.5 30 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 5 d2fika2 7.4 17 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 6 d1f32a_ 7.1 33 Fold:Pepsin inhibitor-3 Superfamily:Pepsin inhibitor-3 Family:Pepsin inhibitor-3 7 d1x38a2 6.9 25 Fold:Flavodoxin-like Superfamily:Beta-D-glucan exohydrolase, C-terminal domain Family:Beta-D-glucan exohydrolase, C-terminal domain 8 c1k8iB_ 6.8 13 PDB header:immune system Chain: B: PDB Molecule:mhc class ii h2-m beta 2 chain; PDBTitle: crystal structure of mouse h2-dm 9 c2p24A_ 6.7 19 PDB header:immune system Chain: A: PDB Molecule:h-2 class ii histocompatibility antigen, a-u alpha chain; PDBTitle: i-au/mbp125-135 10 d1vqoe2 5.5 24 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 11 c1j0yD_ 5.3 44 PDB header:hydrolase Chain: D: PDB Molecule:beta-amylase; PDBTitle: beta-amylase from bacillus cereus var. mycoides in complex2 with glucose 12 c3dbxA_ 5.2 13 PDB header:immune system Chain: A: PDB Molecule:cd1-2 antigen; PDBTitle: structure of chicken cd1-2 with bound fatty acid

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