SMTL ID : 6syf.2 (3 other biounits)

Human Ubc9 with covalent isopeptide ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x ACE- LEU- ARG- LEU- ARG- GLY- CYS: ACE-LEU-ARG-LEU-ARG-GLY-CYS(Non-covalent)

ACE-LEU-ARG-LEU-ARG-GLY-CYS.1: 17 residues within 4Å: Chain A: N.85, C.93, L.94, S.95, I.96, D.102, R.104, I.107, Q.111, G.115, E.118, L.119, N.124, D.127, P.128, A.129 Ligands: ACE-ILE-LYS-GLN-GLU.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.107, A:Q.111, A:E.118 Hydrogen bonds: A:N.85, A:C.93, A:S.95, A:N.124 Water bridges: A:I.96, A:D.102, A:R.104 Salt bridges: A:D.102

1 x ACE- ILE- LYS- GLN- GLU: ACE-ILE-LYS-GLN-GLU(Non-covalent)

ACE-ILE-LYS-GLN-GLU.2: 9 residues within 4Å: Chain A: Y.87, S.89, T.91, C.93, D.127, P.128, A.129, A.131 Ligands: ACE-LEU-ARG-LEU-ARG-GLY-CYS.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.87, A:A.131 Hydrogen bonds: A:Y.87, A:S.89, A:D.127, A:P.128 Water bridges: A:S.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hofmann, R. et al., Lysine acylation using conjugating enzymes for site-specific modification and ubiquitination of recombinant proteins. Nat.Chem. (2020)

Release Date

2020-08-12

Peptides

SUMO-conjugating enzyme UBC9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

SUMO-conjugating enzyme UBC9

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