SMTL ID : 5hda.1

Crystal Structure of the BS69 coiled coil-MYND domains bound to an EBNA2 PXLXP motif

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

homo-dimer

Ligands

2 x SER- MET- PRO- GLU- LEU- SER- PRO- VAL: Epstein-Barr nuclear antigen 2(Non-covalent)

SER-MET-PRO-GLU-LEU-SER-PRO-VAL.1: 10 residues within 4Å: Chain A: M.93, Y.94, H.95, C.96, Q.108, Q.109, W.112, R.122 Chain B: W.98, R.121 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.94, A:H.95, A:Q.108, A:W.112, B:W.98, B:W.98 Hydrogen bonds: A:M.93, A:Q.108 Water bridges: A:H.95, A:H.95, A:W.112 SER-MET-PRO-GLU-LEU-SER-PRO-VAL.2: 10 residues within 4Å: Chain A: W.98, R.121 Chain B: M.93, Y.94, H.95, C.96, Q.108, Q.109, W.112, R.122 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.94, B:H.95, B:Q.108, B:W.112, A:W.98 Hydrogen bonds: B:M.93, B:Q.108, B:R.122, A:R.121 Water bridges: B:H.95, B:H.95

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.96, C.97, H.116, C.120 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.96, A:C.97, A:H.116, A:C.120 ZN.4: 4 residues within 4Å: Chain A: C.85, C.88, C.103, C.107 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.85, A:C.88, A:C.103, A:C.107 ZN.5: 4 residues within 4Å: Chain B: C.85, C.88, C.103, C.107 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.85, B:C.88, B:C.103, B:C.107 ZN.6: 4 residues within 4Å: Chain B: C.96, C.97, H.116, C.120 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.96, B:C.97, B:H.116, B:C.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harter, M.R. et al., BS69/ZMYND11 C-Terminal Domains Bind and Inhibit EBNA2. Plos Pathog. (2016)

Release Date

2016-01-20

Peptides

Zinc finger MYND domain-containing protein 11: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Zinc finger MYND domain-containing protein 11