SMTL ID : 3cjt.1 (7 other biounits)

Ribosomal protein L11 methyltransferase (PrmA) in complex with dimethylated ribosomal protein L11

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NO3: NITRATE ION(Non-functional Binders)

NO3.1: 7 residues within 4Å: Chain A: F.99, A.104, E.105, T.106, W.247 Chain B: A.61 Ligands: 2MM.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.106 Water bridges: A:E.105, A:E.105 NO3.6: 5 residues within 4Å: Chain A: L.192, Y.193 Chain B: K.2 Ligands: SAH.4, 2MM.7 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:L.192, B:K.2 Water bridges: B:K.2, B:K.2

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

CL.2: 1 residues within 4Å: Chain A: R.170 Ligand excluded by PLIP CL.3: 1 residues within 4Å: Chain A: R.170 Ligand excluded by PLIP

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

SAH.4: 21 residues within 4Å: Chain A: F.99, G.100, T.107, D.126, L.127, G.128, T.129, G.130, V.133, L.134, D.149, I.150, D.151, G.174, S.175, N.191, L.192, L.196 Chain B: K.2 Ligands: NO3.6, 2MM.7 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.99 Hydrogen bonds: A:G.128, A:G.130, A:I.150, A:S.175, A:S.175, A:N.191 Water bridges: A:D.151, A:D.151, A:Y.193, B:K.2, B:K.2

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 2 residues within 4Å: Chain A: P.210, G.211 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.254 EDO.8: 4 residues within 4Å: Chain A: F.21 Chain B: P.13, D.50, A.51 No protein-ligand interaction detected (PLIP)

1 x 2MM: N,N-dimethyl-L-methionine(Covalent)

2MM.7: 12 residues within 4Å: Chain A: T.106, N.191, L.192, Y.193, G.218, L.220, W.247 Chain B: K.2, K.3 Ligands: NO3.1, SAH.4, NO3.6 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.193 Water bridges: B:K.3, B:K.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Demirci, H. et al., Multiple-Site Trimethylation of Ribosomal Protein L11 by the PrmA Methyltransferase. Structure (2008)

Release Date

2008-05-20

Peptides

Ribosomal protein L11 methyltransferase: A
50S ribosomal protein L11: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosomal protein L11 methyltransferase

50S ribosomal protein L11

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