SMTL ID : 6vpr.1 (1 other biounit)

Crystal structure of the C-terminal domain of DENR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

2 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.1: 4 residues within 4Å: Chain A: K.126, Q.167 Ligands: ACT.5, HG.7 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.126, A:K.126 TLA.2: 3 residues within 4Å: Chain A: K.142, Q.145, R.146 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.142, A:Q.145, A:R.146 Salt bridges: A:K.142, A:K.142, A:R.146, A:R.146

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: K.126, Y.127, G.168, D.169 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.127, A:Y.127, A:D.169 Salt bridges: A:K.126 SO4.4: 2 residues within 4Å: Chain A: G.160, E.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.161

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 5 residues within 4Å: Chain A: S.153, C.154, G.155 Ligands: TLA.1, HG.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.155

2 x HG: MERCURY (II) ION(Non-covalent)

HG.6: 2 residues within 4Å: Chain A: C.132, E.163 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.132, A:E.163 HG.7: 4 residues within 4Å: Chain A: C.154, Q.167 Ligands: TLA.1, ACT.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lomakin, I.B. et al., Crystal structure of the C-terminal domain of DENR. Comput Struct Biotechnol J (2020)

Release Date

2020-04-08

Peptides

Density-regulated protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Density-regulated protein

Related Entries With Identical Sequence