SMTL ID : 5jqs.1

Crystal structure of deubiquitinase MINDY-1 in complex with Ubiquitin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x AYE: prop-2-en-1-amine(Covalent)

AYE.1: 8 residues within 4Å: Chain A: Q.36, G.40, C.42, P.43, G.112, N.223, H.224 Chain B: G.75 1 PLIP interactions: 1 interactions with chain A Water bridges: A:C.42

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

SO4.2: 4 residues within 4Å: Chain A: A.211, K.212, E.213, K.230 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.213 Salt bridges: A:K.230 SO4.3: 2 residues within 4Å: Chain A: R.169, L.181 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.169 SO4.6: 1 residues within 4Å: Chain B: R.72 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.72

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 4 residues within 4Å: Chain A: Q.54, G.214, E.215, L.216 Ligand excluded by PLIP

1 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.5: 2 residues within 4Å: Chain A: L.204, T.208 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abdul Rehman, S.A. et al., MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes. Mol.Cell (2016)

Release Date

2016-06-22

Peptides

Protein FAM63A: A
Ubiquitin-40S ribosomal protein S27a: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Protein FAM63A

Ubiquitin-40S ribosomal protein S27a

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