Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	S	H	P	R	W	R	L	A	K	K	I	L	T	W	L	F	F	I	A	V	I	V	L	L	V	V	Y	A	K	K	V	D	W	E	E	V	W	K	V	I	R	D	Y	N	R	V	A	L	L	S	A	V	G	L	V	V	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	Y	L	I	Y	G	C	Y	D	L	L	A	R	F	Y	C	G	H	K	L	A	K	R	Q	V	M	L	V	S	F	I	C	Y	A	F	N	L	T	L	S	T	W	V	G	G	I	G	M	R	Y	R	L	Y	S	R	L	G	L	P	G
Secondary structure
SS confidence
Disorder																																						?	?	?	?	?			?												?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	T	I	T	R	I	F	S	L	S	I	T	T	N	W	L	G	Y	I	L	L	A	G	I	I	F	T	A	G	V	V	E	L	P	D	H	W	Y	V	D	Q	T	T	L	R	I	L	G	I	G	L	L	M	I	I	A	V	Y	L	W
Secondary structure
SS confidence
Disorder																																?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	C	A	F	A	K	H	R	H	M	T	I	K	G	Q	K	L	V	L	P	S	W	K	F	A	L	A	Q	M	L	I	S	S	V	N	W	M	V	M	G	A	I	I	W	L	L	L	G	Q	S	V	N	Y	F	F	V	L	G	V	L
Secondary structure
SS confidence
Disorder							?								?	?	?			?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	V	S	S	I	A	G	V	I	V	H	I	P	A	G	I	G	V	L	E	A	V	F	I	A	L	L	A	G	E	H	T	S	K	G	T	I	I	A	A	L	L	A	Y	R	V	L	Y	Y	F	I	P	L	L	L	A	L	I	C	Y
Secondary structure
SS confidence
Disorder																													?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.
Sequence		L	L	L	E	S	Q	A	K	K	L	R	A	K	N	E	A	A	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 3p2o chain A Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 36.3% Identity: 20% PDB header:oxidoreductase, hydrolase Chain: A: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni Phyre2 PDB 3l07 chain B Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 35.7% Identity: 20% PDB header:oxidoreductase,hydrolase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate2 cyclohydrolase, putative bifunctional protein fold from francisella3 tularensis. Phyre2 PDB 2c2x chain B Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 35.2% Identity: 33% PDB header:oxidoreductase Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase- PDBTitle: three dimensional structure of bifunctional2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase3 from mycobacterium tuberculosis Phyre2 PDB 3p2o chain B Region: 251 - 265 Aligned: 15 Modelled: 3 Confidence: 35.2% Identity: 20% PDB header:oxidoreductase, hydrolase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni Phyre2 PDB 4a26 chain B Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 34.4% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:putative c-1-tetrahydrofolate synthase, cytoplasmic; PDBTitle: the crystal structure of leishmania major n5,n10-2 methylenetetrahydrofolate dehydrogenase/cyclohydrolase Phyre2 PDB 4a5o chain B Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 34.2% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of pseudomonas aeruginosa n5, n10-2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase (fold) Phyre2 PDB 1b0a chain A Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 34.0% Identity: 20% PDB header:oxidoreductase,hydrolase Chain: A: PDB Molecule:protein (fold bifunctional protein); PDBTitle: 5,10, methylene-tetrahydropholate2 dehydrogenase/cyclohydrolase from e coli. Phyre2 PDB 1b0a chain A domain 1 Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 27.0% Identity: 20% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Aminoacid dehydrogenase-like, C-terminal domain Phyre2 PDB 1a4i chain B Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 25.8% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase / PDBTitle: human tetrahydrofolate dehydrogenase / cyclohydrolase Phyre2 PDB 3ngl chain A Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 24.4% Identity: 33% PDB header:oxidoreductase, hydrolase Chain: A: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of bifunctional 5,10-methylenetetrahydrofolate2 dehydrogenase / cyclohydrolase from thermoplasma acidophilum Phyre2 PDB 1a4i chain A domain 1 Region: 251 - 265 Aligned: 15 Modelled: 15 Confidence: 21.7% Identity: 20% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Aminoacid dehydrogenase-like, C-terminal domain Phyre2 PDB 3cwb chain T Region: 285 - 317 Aligned: 33 Modelled: 33 Confidence: 18.4% Identity: 27% PDB header:oxidoreductase Chain: T: PDB Molecule:mitochondrial ubiquinol-cytochrome c reductase ubiquinone- PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d Phyre2 PDB 1ydh chain A Region: 252 - 260 Aligned: 9 Modelled: 9 Confidence: 17.6% Identity: 44% Fold: MCP/YpsA-like Superfamily: MCP/YpsA-like Family: MoCo carrier protein-like Phyre2 PDB 2q4d chain B Region: 252 - 260 Aligned: 9 Modelled: 9 Confidence: 17.0% Identity: 44% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:lysine decarboxylase-like protein at5g11950; PDBTitle: ensemble refinement of the crystal structure of a lysine2 decarboxylase-like protein from arabidopsis thaliana gene at5g11950 Phyre2 PDB 1bcc chain G Region: 286 - 317 Aligned: 32 Modelled: 32 Confidence: 16.5% Identity: 28% Fold: Single transmembrane helix Superfamily: Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1t35 chain A Region: 252 - 260 Aligned: 9 Modelled: 8 Confidence: 16.3% Identity: 44% Fold: MCP/YpsA-like Superfamily: MCP/YpsA-like Family: MoCo carrier protein-like Phyre2 PDB 2q4o chain A domain 1 Region: 252 - 260 Aligned: 9 Modelled: 9 Confidence: 14.2% Identity: 56% Fold: MCP/YpsA-like Superfamily: MCP/YpsA-like Family: MoCo carrier protein-like Phyre2 PDB 2q4o chain A Region: 252 - 260 Aligned: 9 Modelled: 9 Confidence: 14.2% Identity: 56% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein at2g37210/t2n18.3; PDBTitle: ensemble refinement of the crystal structure of a lysine2 decarboxylase-like protein from arabidopsis thaliana gene at2g37210 Phyre2 PDB 3qua chain A Region: 252 - 274 Aligned: 23 Modelled: 23 Confidence: 6.2% Identity: 22% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein and possible2 molybdenum cofactor protein from mycobacterium smegmatis Phyre2 PDB 1weh chain A Region: 252 - 260 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 44% Fold: MCP/YpsA-like Superfamily: MCP/YpsA-like Family: MoCo carrier protein-like Phyre2 1 c3p2oA_ 2 c3l07B_ 3 c2c2xB_ 4 c3p2oB_ 5 c4a26B_ 6 c4a5oB_ 7 c1b0aA_ 8 d1b0aa1 9 c1a4iB_ 10 c3nglA_ 11 d1a4ia1 12 c3cwbT_ 13 d1ydha_ 14 c2q4dB_ 15 d1bccg_ 16 d1t35a_ 17 d2q4oa1 18 c2q4oA_ 19 c3quaA_ 20 d1weha_

Detailed template information

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

1 c3p2oA_ 36.3 20 PDB header:oxidoreductase, hydrolase Chain: A: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni 2 c3l07B_ 35.7 20 PDB header:oxidoreductase,hydrolase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate2 cyclohydrolase, putative bifunctional protein fold from francisella3 tularensis. 3 c2c2xB_ 35.2 33 PDB header:oxidoreductase Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase- PDBTitle: three dimensional structure of bifunctional2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase3 from mycobacterium tuberculosis 4 c3p2oB_ 35.2 20 PDB header:oxidoreductase, hydrolase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of fold bifunctional protein from campylobacter2 jejuni 5 c4a26B_ 34.4 20 PDB header:oxidoreductase Chain: B: PDB Molecule:putative c-1-tetrahydrofolate synthase, cytoplasmic; PDBTitle: the crystal structure of leishmania major n5,n10-2 methylenetetrahydrofolate dehydrogenase/cyclohydrolase 6 c4a5oB_ 34.2 20 PDB header:oxidoreductase Chain: B: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of pseudomonas aeruginosa n5, n10-2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase (fold) 7 c1b0aA_ 34.0 20 PDB header:oxidoreductase,hydrolase Chain: A: PDB Molecule:protein (fold bifunctional protein); PDBTitle: 5,10, methylene-tetrahydropholate2 dehydrogenase/cyclohydrolase from e coli. 8 d1b0aa1 27.0 20 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 9 c1a4iB_ 25.8 20 PDB header:oxidoreductase Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase / PDBTitle: human tetrahydrofolate dehydrogenase / cyclohydrolase 10 c3nglA_ 24.4 33 PDB header:oxidoreductase, hydrolase Chain: A: PDB Molecule:bifunctional protein fold; PDBTitle: crystal structure of bifunctional 5,10-methylenetetrahydrofolate2 dehydrogenase / cyclohydrolase from thermoplasma acidophilum 11 d1a4ia1 21.7 20 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 12 c3cwbT_ 18.4 27 PDB header:oxidoreductase Chain: T: PDB Molecule:mitochondrial ubiquinol-cytochrome c reductase ubiquinone- PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 13 d1ydha_ 17.6 44 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-like 14 c2q4dB_ 17.0 44 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:lysine decarboxylase-like protein at5g11950; PDBTitle: ensemble refinement of the crystal structure of a lysine2 decarboxylase-like protein from arabidopsis thaliana gene at5g11950 15 d1bccg_ 16.5 28 Fold:Single transmembrane helix Superfamily:Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 16 d1t35a_ 16.3 44 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-like 17 d2q4oa1 14.2 56 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-like 18 c2q4oA_ 14.2 56 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein at2g37210/t2n18.3; PDBTitle: ensemble refinement of the crystal structure of a lysine2 decarboxylase-like protein from arabidopsis thaliana gene at2g37210 19 c3quaA_ 6.2 22 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein and possible2 molybdenum cofactor protein from mycobacterium smegmatis 20 d1weha_ 5.3 44 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-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