SMTL ID : 7wnu.1

Mycobacterium tuberculosis Rnase J complex with 7nt RNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 x A- A- A- A- A- A- A: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*A)-3')(Non-covalent)

A-A-A-A-A-A-A.1: 35 residues within 4Å: Chain A: I.27, F.49, H.83, E.84, K.115, E.118, D.170, T.204, F.238, A.239, S.240, G.263, R.264, S.265, R.268, T.305, E.310, M.312, S.313, A.314, R.317, E.322, H.323, R.324, S.339, I.341, P.342, S.373, G.374, H.375, H.397, R.401, M.402 Ligands: ZN.3, ZN.4 Protein-ligand interaction information (PLIP) not available A-A-A-A-A-A-A.2: 30 residues within 4Å: Chain B: I.27, F.49, H.83, E.84, D.85, D.170, T.204, N.205, F.238, A.239, S.240, G.263, R.264, S.265, T.305, E.310, M.312, S.313, A.314, R.317, I.341, P.342, N.344, H.371, S.373, G.374, H.375, M.402 Ligands: ZN.5, ZN.6 Protein-ligand interaction information (PLIP) not available

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain A: H.81, H.83, H.148, D.170 Ligands: A-A-A-A-A-A-A.1, ZN.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.81, A:H.83, A:H.148, A:D.170, A:D.170 ZN.4: 7 residues within 4Å: Chain A: H.83, D.85, H.86, D.170, H.397 Ligands: A-A-A-A-A-A-A.1, ZN.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.86, A:D.170, A:H.397 ZN.5: 8 residues within 4Å: Chain B: N.30, H.83, D.85, H.86, D.170, H.397 Ligands: A-A-A-A-A-A.2, ZN.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.86, B:D.170, B:D.170, B:H.397 ZN.6: 6 residues within 4Å: Chain B: H.81, H.83, H.148, D.170 Ligands: A-A-A-A-A-A.2, ZN.5 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.81, B:H.83, B:H.148, B:D.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bao, L. et al., Structural insights into RNase J that plays an essential role in Mycobacterium tuberculosis RNA metabolism. Nat Commun (2023)

Release Date

2023-01-25

Peptides

Ribonuclease J: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribonuclease J

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