Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	E	E	I	A	G	F	Q	T	S	P	K	A	Q	V	Q	A	A	F	E	E	I	A	R	R	S	M	H	D	L	S	F	L	H	P	S	M	P	V	Y	V	S	D	F	T	L	F	E	G	Q	W	T	G	C	V	I	T	P	W
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	L	S	A	V	I	F	P	G	P	D	Q	L	W	P	L	R	K	V	S	E	K	I	G	L	Q	L	P	Y	G	T	M	T	F	T	V	G	E	L	D	G	V	S	Q	Y	L	S	C	S	L	M	S	P	L	S	H	S	M	S	I
Secondary structure
SS confidence
Disorder													?	?	?	?	?	?	?	?		?	?																																		?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.
Sequence		E	E	G	Q	R	L	T	D	D	C	A	R	M	I	L	S	L	P	V	T	N	P	D	V	P	H	A	G	R	R	A	L	L	F	G	R	R	S	G	E	N	A
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 2kc5 chain A Region: 1 - 162 Aligned: 162 Modelled: 162 Confidence: 100.0% Identity: 100% PDB header:chaperone Chain: A: PDB Molecule:hydrogenase-2 operon protein hybe; PDBTitle: solution structure of hybe from escherichia coli Phyre2 PDB 1e6v chain A domain 2 Region: 7 - 40 Aligned: 32 Modelled: 34 Confidence: 67.0% Identity: 16% Fold: Ferredoxin-like Superfamily: Methyl-coenzyme M reductase subunits Family: Methyl-coenzyme M reductase alpha and beta chain N-terminal domain Phyre2 PDB 1hbn chain A domain 2 Region: 7 - 40 Aligned: 32 Modelled: 34 Confidence: 53.8% Identity: 19% Fold: Ferredoxin-like Superfamily: Methyl-coenzyme M reductase subunits Family: Methyl-coenzyme M reductase alpha and beta chain N-terminal domain Phyre2 PDB 1hbu chain D Region: 7 - 40 Aligned: 32 Modelled: 34 Confidence: 24.1% Identity: 19% PDB header:methanogenesis Chain: D: PDB Molecule:methyl-coenzyme m reductase i alpha subunit; PDBTitle: methyl-coenzyme m reductase in the mcr-red1-silent state in2 complex with coenzyme m Phyre2 PDB 1cn3 chain F Region: 57 - 66 Aligned: 10 Modelled: 10 Confidence: 17.3% Identity: 50% PDB header:viral protein Chain: F: PDB Molecule:fragment of coat protein vp2; PDBTitle: interaction of polyomavirus internal protein vp2 with major2 capsid protein vp1 and implications for participation of3 vp2 in viral entry Phyre2 PDB 2ide chain E Region: 31 - 46 Aligned: 15 Modelled: 16 Confidence: 7.4% Identity: 20% PDB header:biosynthetic protein Chain: E: PDB Molecule:molybdenum cofactor biosynthesis protein c; PDBTitle: crystal structure of the molybdenum cofactor biosynthesis protein c2 (ttha1789) from thermus theromophilus hb8 Phyre2 PDB 2eey chain A Region: 31 - 46 Aligned: 15 Modelled: 16 Confidence: 7.2% Identity: 20% PDB header:biosynthetic protein Chain: A: PDB Molecule:molybdopterin biosynthesis; PDBTitle: structure of gk0241 protein from geobacillus kaustophilus Phyre2 PDB 1ekr chain A Region: 31 - 46 Aligned: 15 Modelled: 16 Confidence: 6.6% Identity: 13% Fold: Ferredoxin-like Superfamily: Molybdenum cofactor biosynthesis protein C, MoaC Family: Molybdenum cofactor biosynthesis protein C, MoaC Phyre2 PDB 3cmq chain A Region: 32 - 63 Aligned: 28 Modelled: 32 Confidence: 6.5% Identity: 29% PDB header:ligase Chain: A: PDB Molecule:phenylalanyl-trna synthetase, mitochondrial; PDBTitle: crystal structure of human mitochondrial phenylalanine trna2 synthetase Phyre2 1 c2kc5A_ 2 d1e6va2 3 d1hbna2 4 c1hbuD_ 5 c1cn3F_ 6 c2ideE_ 7 c2eeyA_ 8 d1ekra_ 9 c3cmqA_

Detailed template information

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

1 c2kc5A_ 100.0 100 PDB header:chaperone Chain: A: PDB Molecule:hydrogenase-2 operon protein hybe; PDBTitle: solution structure of hybe from escherichia coli 2 d1e6va2 67.0 16 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase alpha and beta chain N-terminal domain 3 d1hbna2 53.8 19 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase alpha and beta chain N-terminal domain 4 c1hbuD_ 24.1 19 PDB header:methanogenesis Chain: D: PDB Molecule:methyl-coenzyme m reductase i alpha subunit; PDBTitle: methyl-coenzyme m reductase in the mcr-red1-silent state in2 complex with coenzyme m 5 c1cn3F_ 17.3 50 PDB header:viral protein Chain: F: PDB Molecule:fragment of coat protein vp2; PDBTitle: interaction of polyomavirus internal protein vp2 with major2 capsid protein vp1 and implications for participation of3 vp2 in viral entry 6 c2ideE_ 7.4 20 PDB header:biosynthetic protein Chain: E: PDB Molecule:molybdenum cofactor biosynthesis protein c; PDBTitle: crystal structure of the molybdenum cofactor biosynthesis protein c2 (ttha1789) from thermus theromophilus hb8 7 c2eeyA_ 7.2 20 PDB header:biosynthetic protein Chain: A: PDB Molecule:molybdopterin biosynthesis; PDBTitle: structure of gk0241 protein from geobacillus kaustophilus 8 d1ekra_ 6.6 13 Fold:Ferredoxin-like Superfamily:Molybdenum cofactor biosynthesis protein C, MoaC Family:Molybdenum cofactor biosynthesis protein C, MoaC 9 c3cmqA_ 6.5 29 PDB header:ligase Chain: A: PDB Molecule:phenylalanyl-trna synthetase, mitochondrial; PDBTitle: crystal structure of human mitochondrial phenylalanine trna2 synthetase

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