Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	I	L	P	R	H	K	D	V	A	K	S	R	L	K	M	S	N	P	W	H	L	L	A	V	G	F	G	S	G	L	S	P	I	V	P	G	T	M	G	S	L	A	A	I	P	F	W	Y	L	M	T	F	L	P	W	Q	L	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	L	V	V	M	L	G	I	C	I	G	V	Y	L	C	H	Q	T	A	K	D	M	G	V	H	D	H	G	S	I	V	W	D	E	F	I	G	M	W	I	T	L	M	A	L	P	T	N	D	W	Q	W	V	A	A	G	F	V	I	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.
Sequence		R	I	L	D	M	W	K	P	W	P	I	R	W	F	D	R	N	V	H	G	G	M	G	I	M	I	D	D	I	V	A	G	V	I	S	A	G	I	L	Y	F	I	G	H	H	W	P	L	G	I	L	S
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 1tlq chain A Region: 86 - 162 Aligned: 68 Modelled: 77 Confidence: 99.9% Identity: 28% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ypjq; PDBTitle: crystal structure of protein ypjq from bacillus subtilis, pfam duf64 Phyre2 PDB 1tlq chain A Region: 86 - 162 Aligned: 68 Modelled: 77 Confidence: 99.9% Identity: 28% Fold: YutG-like Superfamily: YutG-like Family: YutG-like Phyre2 PDB 1rfz chain A Region: 86 - 164 Aligned: 71 Modelled: 79 Confidence: 99.9% Identity: 23% Fold: YutG-like Superfamily: YutG-like Family: YutG-like Phyre2 PDB 1y9i chain A Region: 84 - 165 Aligned: 74 Modelled: 82 Confidence: 99.9% Identity: 20% Fold: YutG-like Superfamily: YutG-like Family: YutG-like Phyre2 PDB 1loi chain A Region: 127 - 136 Aligned: 10 Modelled: 10 Confidence: 15.2% Identity: 50% PDB header:hydrolase Chain: A: PDB Molecule:cyclic 3',5'-amp specific phosphodiesterase rd1; PDBTitle: n-terminal splice region of rat c-amp phosphodiesterase,2 nmr, 7 structures Phyre2 PDB 2zxi chain C Region: 111 - 150 Aligned: 36 Modelled: 40 Confidence: 12.9% Identity: 28% PDB header:fad-binding protein Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl PDBTitle: structure of aquifex aeolicus gida in the form ii crystal Phyre2 PDB 3cp8 chain C Region: 111 - 150 Aligned: 36 Modelled: 40 Confidence: 10.0% Identity: 22% PDB header:oxidoreductase Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl PDBTitle: crystal structure of gida from chlorobium tepidum Phyre2 PDB 1ctd chain A Region: 119 - 124 Aligned: 6 Modelled: 6 Confidence: 9.6% Identity: 67% Fold: EF Hand-like Superfamily: EF-hand Family: Calmodulin-like Phyre2 PDB 2b6c chain A domain 1 Region: 74 - 91 Aligned: 18 Modelled: 18 Confidence: 7.9% Identity: 0% Fold: alpha-alpha superhelix Superfamily: ARM repeat Family: BC3264-like Phyre2 PDB 3eeq chain B Region: 74 - 94 Aligned: 21 Modelled: 21 Confidence: 7.4% Identity: 10% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative cobalamin biosynthesis protein g PDBTitle: crystal structure of a putative cobalamin biosynthesis2 protein g homolog from sulfolobus solfataricus Phyre2 PDB 3eeq chain A domain 2 Region: 83 - 94 Aligned: 12 Modelled: 12 Confidence: 5.8% Identity: 17% Fold: CbiG N-terminal domain-like Superfamily: CbiG N-terminal domain-like Family: CbiG N-terminal domain-like Phyre2 1 c1tlqA_ 2 d1tlqa_ 3 d1rfza_ 4 d1y9ia_ 5 c1loiA_ 6 c2zxiC_ 7 c3cp8C_ 8 d1ctda_ 9 d2b6ca1 10 c3eeqB_ 11 d3eeqa2

Detailed template information

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

1 c1tlqA_ 99.9 28 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ypjq; PDBTitle: crystal structure of protein ypjq from bacillus subtilis, pfam duf64 2 d1tlqa_ 99.9 28 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 3 d1rfza_ 99.9 23 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 4 d1y9ia_ 99.9 20 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 5 c1loiA_ 15.2 50 PDB header:hydrolase Chain: A: PDB Molecule:cyclic 3',5'-amp specific phosphodiesterase rd1; PDBTitle: n-terminal splice region of rat c-amp phosphodiesterase,2 nmr, 7 structures 6 c2zxiC_ 12.9 28 PDB header:fad-binding protein Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl PDBTitle: structure of aquifex aeolicus gida in the form ii crystal 7 c3cp8C_ 10.0 22 PDB header:oxidoreductase Chain: C: PDB Molecule:trna uridine 5-carboxymethylaminomethyl PDBTitle: crystal structure of gida from chlorobium tepidum 8 d1ctda_ 9.6 67 Fold:EF Hand-like Superfamily:EF-hand Family:Calmodulin-like 9 d2b6ca1 7.9 0 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:BC3264-like 10 c3eeqB_ 7.4 10 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative cobalamin biosynthesis protein g PDBTitle: crystal structure of a putative cobalamin biosynthesis2 protein g homolog from sulfolobus solfataricus 11 d3eeqa2 5.8 17 Fold:CbiG N-terminal domain-like Superfamily:CbiG N-terminal domain-like Family:CbiG N-terminal 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