SMTL ID : 9le4.1 (1 other biounit)

Crystal structure of the MIT-CD complex of STAMBP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 7 residues within 4Å: Chain B: F.136, C.168, V.171, T.172, V.173 Chain D: S.167 Ligands: MES.2 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:V.173, D:S.167 Water bridges: B:F.136 MES.2: 8 residues within 4Å: Chain B: F.137, S.167 Chain D: F.136, C.168, V.171, T.172, V.173 Ligands: MES.1 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain B Hydrogen bonds: D:V.173, B:S.167 Water bridges: D:F.136, B:S.167, B:S.167

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain B: H.95, H.97, D.108 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.95, B:H.97, B:D.108, H2O.2 ZN.4: 4 residues within 4Å: Chain B: H.110, C.150, H.156, H.158 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.110, B:C.150, B:H.156, B:H.158 ZN.5: 3 residues within 4Å: Chain D: H.95, H.97, D.108 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:H.95, D:H.97, D:D.108, H2O.4 ZN.6: 4 residues within 4Å: Chain D: H.110, C.150, H.156, H.158 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.110, D:C.150, D:H.156, D:H.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Z. et al., The MIT domain of STAMBP autoinhibits its deubiquitination activity. Structure (2025)

Release Date

2025-06-11

Peptides

STAM-binding protein: AC
STAM-binding protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

STAM-binding protein

STAM-binding protein

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