SMTL ID : 7ojn.1

Lassa virus L protein in an elongation conformation [ELONGATION]

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x U- A- C- G- C- A- C- A- G: product RNA(Non-covalent)

U-A-C-G-C-A-C-A-G.1: 28 residues within 4Å: Chain A: H.707, K.711, A.822, S.823, N.824, H.1298, S.1330, D.1331, D.1332, K.1384, S.1385, K.1399, Q.1415, T.1419, I.1423, Q.1426, N.1586, K.1587 Chain C: A.12, C.13, U.14, G.15, U.16, G.17, C.18, G.19 Ligands: 2KH.2, MN.4 Protein-ligand interaction information (PLIP) not available

1 x 2KH: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine(Non-covalent)

2KH.2: 16 residues within 4Å: Chain A: K.1124, R.1131, D.1190, H.1191, S.1192, K.1193, W.1194, G.1195, Q.1294, G.1295, D.1331, K.1373 Chain C: A.12 Ligands: U-A-C-G-C-A-C-A-G.1, MN.3, MN.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.1131, A:R.1131, A:K.1193, A:W.1194, A:G.1195, A:G.1295 Salt bridges: A:K.1193, A:K.1373

5 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 5 residues within 4Å: Chain A: D.1190, H.1191, D.1331 Ligands: 2KH.2, MN.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.1190, A:H.1191, A:D.1331 MN.4: 6 residues within 4Å: Chain A: D.1190, D.1331, D.1332 Ligands: U-A-C-G-C-A-C-A-G.1, 2KH.2, MN.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.1190, A:D.1331, A:D.1332 MN.5: 4 residues within 4Å: Chain A: V.87, D.89, E.188 Ligands: MN.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.89 MN.6: 4 residues within 4Å: Chain A: D.89, C.103, E.188 Ligands: MN.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.89, A:C.103 MN.7: 1 residues within 4Å: Chain A: E.1152 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.1152

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain A: H.316, C.321, H.364, C.366 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.316, A:C.321, A:H.364, A:C.366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kouba, T. et al., Conformational changes in Lassa virus L protein associated with promoter binding and RNA synthesis activity. Nat Commun (2021)

Release Date

2021-12-01

Peptides

RNA-directed RNA polymerase L: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

RNA-directed RNA polymerase L

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