SMTL ID : 8jwj.1 (1 other biounit)

PHD Finger Protein 7 (PHF7) in complex with UBE2D2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.96 Å

Oligo State

hetero-1-1-mer

Ligands

7 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.11, C.14, H.36, C.39 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.11, A:C.14, A:H.36, A:C.39 ZN.2: 4 residues within 4Å: Chain A: C.76, C.79, H.98, C.101 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.76, A:C.79, A:H.98, A:C.101 ZN.3: 4 residues within 4Å: Chain A: C.88, C.93, C.119, H.122 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.88, A:C.93, A:C.119, A:H.122 ZN.4: 4 residues within 4Å: Chain A: C.138, C.141, H.164, C.167 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.138, A:C.141, A:H.164, A:C.167 ZN.5: 4 residues within 4Å: Chain A: C.157, C.158, C.182, C.185 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.157, A:C.158, A:C.182, A:C.185 ZN.6: 5 residues within 4Å: Chain A: C.226, C.231, L.232, H.260, C.263 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.226, A:C.231, A:H.260, A:C.263 ZN.7: 4 residues within 4Å: Chain A: C.251, C.254, C.275, C.278 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.251, A:C.254, A:C.275, A:C.278

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

SO4.8: 6 residues within 4Å: Chain A: I.41, S.43, S.44, R.45, L.46, E.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.46, A:L.46, A:E.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, H.S. et al., Molecular basis for PHF7-mediated ubiquitination of histone H3. Genes Dev. (2023)

Release Date

2023-12-20

Peptides

PHD finger protein 7: A
Ubiquitin-conjugating enzyme E2 D2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PHD finger protein 7

Ubiquitin-conjugating enzyme E2 D2

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