SMTL ID : 6mdx.1

Mechanism of protease dependent DPC repair

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x DC- DC: DNA (5'-D(P*CP*C)-3')(Non-covalent)

DC-DC.1: 11 residues within 4Å: Chain A: R.134, Y.150, V.154, K.155, R.156, A.157, T.158, Y.167, W.168, H.172, Y.180 Protein-ligand interaction information (PLIP) not available

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

EDO.2: 4 residues within 4Å: Chain A: R.139, Y.153, I.183 Ligands: FLC.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.139, A:Y.153 Water bridges: A:Y.54

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 2 residues within 4Å: Chain A: T.46, L.67 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: H.82, H.86, H.101 Ligands: FLC.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.82, A:H.86, A:H.101 ZN.5: 4 residues within 4Å: Chain A: C.140, C.144, H.172, C.176 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.140, A:C.144, A:H.172, A:C.176

1 x FLC: CITRATE ANION(Non-covalent)

FLC.6: 12 residues within 4Å: Chain A: G.50, I.51, C.52, H.82, E.83, H.86, H.101, H.124, W.137, Y.153 Ligands: EDO.2, ZN.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:C.52 Salt bridges: A:H.82, A:H.82, A:H.86, A:H.101, A:H.101, A:H.124

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