SMTL ID : 6z3e.1

Crystal structure of GDP-bound human GIMAP5, amino acid residues 1-276

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: S.43, E.56 Ligands: GDP.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.43, H2O.1

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 19 residues within 4Å: Chain A: K.37, T.38, G.39, C.40, G.41, K.42, S.43, A.44, S.57, K.58, L.59, T.153, H.154, E.156, F.189, N.190, N.191, W.192 Ligands: MG.1 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:G.39, A:C.40, A:G.41, A:K.42, A:S.43, A:A.44, A:S.57, A:S.57, A:K.58, A:H.154, A:N.190, A:N.191, A:N.191 Salt bridges: A:K.42, A:E.156 pi-Stacking: A:H.154 pi-Cation interactions: A:W.192, A:W.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, A.Y. et al., GIMAP5 deficiency reveals a mammalian ceramide-driven longevity assurance pathway. Nat.Immunol. (2024)

Release Date

2021-12-01

Peptides

GTPase IMAP family member 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase IMAP family member 5