› 6l4y

X-ray diffraction
1.5Å resolution

Turning an asparaginyl endopeptidase into a peptide ligase

Released:
DOI: 10.2210/pdb6l4y/pdb
PDB entry 6l4y coloured by chain, front view.
PDB entry 6l4y coloured by chain, side view.
PDB entry 6l4y coloured by chain, top view.
Source organism: Clitoria ternatea
Primary publication:
Turning an Asparaginyl Endopeptidase into a Peptide Ligase
Hemu X, El Sahili A, Hu S, Zhang X, Serra A, Goh BC, Darwis DA, Chen MW, Sze SK, Liu CF, Lescar J, Tam JP
ACS Catalysis 10 8825-8834 (2020)

Function and Biology Details

Reaction catalysed: 
Hydrolysis of proteins and small molecule substrates at -Asn-|-Xaa- bonds.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-102576 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Legumain prodomain domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 502 amino acids
Theoretical weight: 55.83 KDa
Source organism: Clitoria ternatea
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017
UniProt:
  • Canonical: A0A0P0QM28 (Residues: 33-488; Coverage: 92%)
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand NAG 2 x NAG
Ligand EDO 1 x EDO
Ligand PEG 1 x PEG
2 modified residues:
Ligand SNN 2 x SNN
Ligand OCS 2 x OCS

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P21
Unit cell:
a: 44.61Å b: 79.6Å c: 136.47Å
α: 90° β: 93.95° γ: 90°
R-values:
R R work R free
0.172 0.172 0.19
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017

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