Brand  (β version)

PDB ID: 4FFO

Hetero Atom Contents

  The number of atoms exceeds 100,000.
  So, it can not be displayed here.

Select unit:

Select hetatm:   

close
information
centroid:
interaction residue:

Select chain:   Sequence  

Data format:   

Color scheme of protein:

Ligands
Code Name Style Show Link
0TK (2r)-2,5-diaminopentanoyl dihydrogen phosphate PoSSuM
ADP Adenosine-5'-diphosphate PoSSuM
ATP Adenosine-5'-triphosphate PoSSuM
MG Magnesium ion PoSSuM
Non-standard Residues
Code Name Show
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 4FFO   PDBj   RCSB PDB   PDBe
Header : LIGASE/Reaction intermediate
Title : PylC in complex with phosphorylated D-ornithine
Release Data : 2012-09-19
Compound :
mol_id molecule chains
1 PylC A
Source :
mol_id organism_scientific expression_system
1 Methanosarcina barkeri  (taxid:269797) Escherichia coli  (taxid:562)
strain: Fusaro
gene: Mbar_A0837
expression_system_strain: BL21DE3
expression_system_vector_type: pET28b
Authors : Quitterer, F., List, A., Beck, P., Bacher, A., Groll, M.
Keywords : amino acid, biosynthesis of pyrrolysine, isopeptide bond formation, ATP-grasp fold, Ligase, L-lysine and 3R-methyl-D-ornithine, Cytosol, LIGASE-Reaction intermediate complex
Exp. method : X-RAY DIFFRACTION ( 2.00 Å )
Citation :

Biosynthesis of the 22nd genetically encoded amino acid pyrrolysine: structure and reaction mechanism of PylC at 1.5A resolution.

Quitterer, F.,List, A.,Beck, P.  et al.
(2012)  J.Mol.Biol.  424 : 270 - 282

PubMed: 22985965
DOI: 10.1016/j.jmb.2012.09.007

Reaction

Chain : A
UniProt : Q46E79 (PYLC_METBF)
Reaction: EC: Evidence:
Physiological Direction:
(3R)-3-methyl-D-ornithine + L-lysine + ATP = (3R)-3-methyl-D- ornithyl-N(6)-L-lysine + ADP + phosphate + H(+) 6.3.2.59 PubMed:22985965
left-to-right
Cofactor: Evidence: Note:
Mg(2+) ECO:0000269 | PubMed:22985965
Binds 2 magnesium ions per subunit.