SMTL ID : 6iiq.1

Complex structure of the HRP3 PWWP domain with a 16-bp TA-rich DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-trimer

Ligands

3 x MLA: MALONIC ACID(Non-covalent)

MLA.1: 6 residues within 4Å: Chain A: M.20, Y.23, W.26, F.49, T.52, E.54 1 PLIP interactions: 1 interactions with chain A Water bridges: A:M.20 MLA.3: 6 residues within 4Å: Chain B: M.20, Y.23, W.26, F.49, T.52, E.54 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.23 Hydrogen bonds: B:T.52 Water bridges: B:M.20, B:W.26 MLA.5: 6 residues within 4Å: Chain C: M.20, Y.23, W.26, F.49, T.52, E.54 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Y.23 Water bridges: C:M.20

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.2: 6 residues within 4Å: Chain A: P.5, R.6, P.7, R.8, P.60, K.61 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.6, A:R.6 Water bridges: A:R.6, A:K.61 TRS.4: 5 residues within 4Å: Chain B: R.6, P.7, R.8, P.60, K.61 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.6, B:R.6, B:R.8 Water bridges: B:R.8, B:R.8 TRS.6: 5 residues within 4Å: Chain C: R.6, P.7, R.8, P.60, K.61 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.6, C:R.6, C:R.6, C:R.6, C:R.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Z. et al., Complex structure of the HRP3 PWWP domain with a 16-bp TA-rich DNA. Nucleic Acids Res. (2019)

Release Date

2019-04-24

Peptides

Hepatoma-derived growth factor-related protein 3: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Hepatoma-derived growth factor-related protein 3

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