Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	I	K	Q	M	P	G	R	V	L	I	S	L	L	L	S	V	T	G	L	L	S	G	C	A	S	H	N	E	N	A	S	L	L	A	K	K	Q	A	Q	N	I	S	Q	N	L	P	I	K	S	A	G	Y	T	L	V	L	A	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?															?	?	?	?	?	?	?											?		?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	S	G	T	T	V	K	M	T	I	I	S	E	A	G	T	Q	T	T	Q	T	P	D	A	F	L	T	S	Y	Q	R	Q	M	C	A	D	P	T	V	K	L	M	I	T	E	G	I	N	Y	S	I	T	I	N	D	T	R	T	G	N
Secondary structure
SS confidence
Disorder		?	?													?	?	?	?	?	?	?																		?															?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.
Sequence		Q	Y	Q	R	K	L	D	R	T	T	C	G	I	V	K	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 2hjj chain A domain 1 Region: 104 - 119 Aligned: 16 Modelled: 16 Confidence: 16.4% Identity: 19% Fold: dsRBD-like Superfamily: YcfA/nrd intein domain Family: YkfF-like Phyre2 PDB 2hjj chain A Region: 104 - 119 Aligned: 16 Modelled: 16 Confidence: 16.4% Identity: 19% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. Phyre2 PDB 2vql chain D Region: 129 - 136 Aligned: 8 Modelled: 8 Confidence: 11.1% Identity: 75% PDB header:membrane protein Chain: D: PDB Molecule:uncharacterized protein cgl0972; PDBTitle: crystal structure of porb from corynebacterium glutamicum (2 crystal form iii) Phyre2 PDB 2rbd chain B Region: 92 - 107 Aligned: 16 Modelled: 16 Confidence: 6.3% Identity: 31% 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 1af7 chain A Region: 23 - 30 Aligned: 8 Modelled: 8 Confidence: 6.3% Identity: 13% PDB header:methyltransferase Chain: A: PDB Molecule:chemotaxis receptor methyltransferase cher; PDBTitle: cher from salmonella typhimurium Phyre2 PDB 2ijr chain A domain 1 Region: 17 - 26 Aligned: 10 Modelled: 10 Confidence: 5.8% Identity: 50% Fold: Api92-like Superfamily: Api92-like Family: Api92-like Phyre2 PDB 2c9w chain C domain 1 Region: 68 - 121 Aligned: 40 Modelled: 54 Confidence: 5.7% Identity: 18% Fold: POZ domain Superfamily: POZ domain Family: BTB/POZ domain Phyre2 PDB 2ii8 chain F Region: 49 - 75 Aligned: 27 Modelled: 27 Confidence: 5.5% Identity: 19% PDB header:signaling protein Chain: F: PDB Molecule:anabaena sensory rhodopsin transducer protein; PDBTitle: anabaena sensory rhodopsin transducer Phyre2 PDB 1f7u chain A domain 3 Region: 78 - 130 Aligned: 53 Modelled: 53 Confidence: 5.4% Identity: 9% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain Family: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain Phyre2 PDB 2bjg chain B Region: 7 - 71 Aligned: 65 Modelled: 65 Confidence: 5.4% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:choloylglycine hydrolase; PDBTitle: crystal structure of conjugated bile acid hydrolase from2 clostridium perfringens in complex with reaction products3 taurine and deoxycholate Phyre2 PDB 1kn7 chain A Region: 23 - 40 Aligned: 18 Modelled: 18 Confidence: 5.2% Identity: 44% PDB header:membrane protein Chain: A: PDB Molecule:voltage-gated potassium channel protein kv1.4; PDBTitle: solution structure of the tandem inactivation domain2 (residues 1-75) of potassium channel rck4 (kv1.4) Phyre2 1 d2hjja1 2 c2hjjA_ 3 c2vqlD_ 4 c2rbdB_ 5 c1af7A_ 6 d2ijra1 7 d2c9wc1 8 c2ii8F_ 9 d1f7ua3 10 c2bjgB_ 11 c1kn7A_

Detailed template information

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

1 d2hjja1 16.4 19 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:YkfF-like 2 c2hjjA_ 16.4 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. 3 c2vqlD_ 11.1 75 PDB header:membrane protein Chain: D: PDB Molecule:uncharacterized protein cgl0972; PDBTitle: crystal structure of porb from corynebacterium glutamicum (2 crystal form iii) 4 c2rbdB_ 6.3 31 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 5 c1af7A_ 6.3 13 PDB header:methyltransferase Chain: A: PDB Molecule:chemotaxis receptor methyltransferase cher; PDBTitle: cher from salmonella typhimurium 6 d2ijra1 5.8 50 Fold:Api92-like Superfamily:Api92-like Family:Api92-like 7 d2c9wc1 5.7 18 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 8 c2ii8F_ 5.5 19 PDB header:signaling protein Chain: F: PDB Molecule:anabaena sensory rhodopsin transducer protein; PDBTitle: anabaena sensory rhodopsin transducer 9 d1f7ua3 5.4 9 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain Family:Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain 10 c2bjgB_ 5.4 14 PDB header:hydrolase Chain: B: PDB Molecule:choloylglycine hydrolase; PDBTitle: crystal structure of conjugated bile acid hydrolase from2 clostridium perfringens in complex with reaction products3 taurine and deoxycholate 11 c1kn7A_ 5.2 44 PDB header:membrane protein Chain: A: PDB Molecule:voltage-gated potassium channel protein kv1.4; PDBTitle: solution structure of the tandem inactivation domain2 (residues 1-75) of potassium channel rck4 (kv1.4)

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