SMTL ID : 6mdw.1

Mechanism of protease dependent DPC repair

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x FLC: CITRATE ANION(Non-covalent)

FLC.1: 13 residues within 4Å: Chain A: G.57, I.58, C.59, H.91, E.92, H.95, H.110, H.133, W.146, Y.162, I.192, K.193 Ligands: ZN.5 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.146 Hydrogen bonds: A:C.59 Water bridges: A:R.148 Salt bridges: A:H.91, A:H.91, A:H.95, A:H.110, A:H.110, A:H.133, A:H.133, A:K.193, A:K.193

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 10 residues within 4Å: Chain A: L.54, R.143, Y.159, Y.162, V.163, R.169, Y.176, W.177, H.181, Y.189 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:Y.159, A:Y.162, A:Y.176 Water bridges: A:R.143, A:R.165, A:R.165, A:R.165, A:R.165, A:R.165, A:R.165, A:R.169, A:D.175 Salt bridges: A:R.169 pi-Stacking: A:Y.159, A:W.177, A:W.177

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 1 residues within 4Å: Chain A: H.119 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.149, C.153, H.181, C.185 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.149, A:C.153, A:H.181, A:C.185 ZN.5: 4 residues within 4Å: Chain A: H.91, H.95, H.110 Ligands: FLC.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.91, A:H.95, A:H.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, F. et al., Structural Insight into DNA-Dependent Activation of Human Metalloprotease Spartan. Cell Rep (2019)

Release Date

2019-04-10

Peptides

SprT-like domain-containing protein Spartan: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

SprT-like domain-containing protein Spartan