SMTL ID : 8cbo.1

Structure of human mitochondrial MRPP1-MRPP2 in complex with mitochondrial pre-tRNA-Ile

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-1-mer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 27 residues within 4Å: Chain A: G.11, S.14, G.15, L.16, L.34, D.35, L.36, S.39, A.57, D.58, V.59, C.85, A.86, G.87, V.114, T.147, A.148, S.149, Y.162, K.166, P.192, G.193, L.194, F.195, T.197, P.198, L.199 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:P.192, A:L.199 Hydrogen bonds: A:G.11, A:A.13, A:S.14, A:L.16, A:L.36, A:D.58, A:D.58, A:V.59, A:C.85, A:G.87, A:K.166, A:F.195, A:F.195, A:T.197, A:L.199 NAD.2: 28 residues within 4Å: Chain B: G.11, A.13, S.14, G.15, L.16, L.34, D.35, L.36, S.39, A.57, D.58, V.59, C.85, A.86, G.87, V.114, T.147, A.148, S.149, Y.162, K.166, P.192, G.193, L.194, F.195, T.197, P.198, L.199 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:P.192, B:L.199 Hydrogen bonds: B:G.11, B:A.13, B:S.14, B:L.16, B:L.36, B:D.58, B:D.58, B:V.59, B:C.85, B:G.87, B:Y.162, B:K.166, B:F.195, B:T.197, B:T.197, B:L.199 NAD.3: 27 residues within 4Å: Chain C: G.11, A.13, S.14, G.15, L.16, L.34, D.35, L.36, S.39, A.57, D.58, V.59, C.85, A.86, G.87, T.147, A.148, S.149, Y.162, K.166, P.192, G.193, F.195, T.197, P.198, L.199, L.200 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:P.192 Hydrogen bonds: C:G.11, C:A.13, C:S.14, C:L.16, C:D.35, C:L.36, C:S.39, C:D.58, C:V.59, C:C.85, C:G.87, C:K.166, C:F.195, C:T.197 NAD.4: 26 residues within 4Å: Chain D: G.11, S.14, G.15, L.16, D.35, L.36, S.39, A.57, D.58, V.59, C.85, A.86, G.87, I.88, V.114, T.147, A.148, S.149, Y.162, K.166, P.192, G.193, F.195, T.197, P.198, L.199 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:P.192 Hydrogen bonds: D:G.11, D:S.14, D:S.14, D:L.16, D:D.35, D:L.36, D:S.39, D:S.39, D:D.58, D:V.59, D:C.85, D:G.87, D:I.88, D:K.166, D:F.195, D:T.197, D:T.197

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.5: 19 residues within 4Å: Chain E: Y.115, L.116, T.117, A.118, I.135, G.136, F.138, D.140, T.147, S.148, E.160, C.161, L.162, L.164, K.175, N.176, L.177, M.182 Chain F: G.14 11 PLIP interactions: 11 interactions with chain E Hydrogen bonds: E:Y.115, E:D.119, E:G.136, E:D.140, E:T.147, E:S.148, E:S.148, E:L.162, E:K.175, E:N.176, E:L.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meynier, V. et al., Structural basis for human mitochondrial tRNA maturation. Nat Commun (2024)

Release Date

2024-06-12

Peptides

3-hydroxyacyl-CoA dehydrogenase type-2: ABCD
tRNA methyltransferase 10 homolog C: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

3-hydroxyacyl-CoA dehydrogenase type-2

tRNA methyltransferase 10 homolog C