SMTL ID : 2e9t.1 (1 other biounit)

Foot-and-mouth disease virus RNA-polymerase RNA dependent in complex with a template-primer RNA and 5F-UTP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x U- A- G- G- G- C- C- C: 5'-R(P*UP*AP*GP*GP*GP*CP*CP*C)-3'(Non-covalent)

U-A-G-G-G-C-C-C.1: 32 residues within 4Å: Chain A: L.108, D.109, T.115, A.116, R.128, F.162, V.181, V.183, I.189, R.193, H.204, V.215, G.216, C.217, N.218, G.299, C.300, S.301, A.302, T.303, S.304, Y.336, I.425, S.426, R.461 Ligands: G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2, G-G-G-C-C-C-5FU.2 Protein-ligand interaction information (PLIP) not available

1 x G- G- G- C- C- C- 5FU: 5'-R(*GP*GP*GP*CP*CP*CP*(5FU))-3'(Non-covalent)

G-G-G-C-C-C-5FU.2: 24 residues within 4Å: Chain A: P.113, S.304, Y.336, G.337, D.338, D.339, L.386, K.387, R.388, I.411, R.416, T.419, E.422, K.423, S.426, V.427, L.430 Ligands: U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1, U-A-G-G-G-C-C-C.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.304, A:D.338, A:D.338, A:D.338, A:D.339, A:K.387 Salt bridges: A:K.387

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.238, D.240, D.339, T.384 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.238, A:D.339, H2O.1, H2O.1 MG.4: 2 residues within 4Å: Chain A: K.172 Ligands: PPV.5 No protein-ligand interaction detected (PLIP)

1 x PPV: PYROPHOSPHATE(Non-covalent)

PPV.5: 6 residues within 4Å: Chain A: R.168, R.179, Y.241, S.242, A.243 Ligands: MG.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.243 Salt bridges: A:R.168, A:K.172, A:K.172

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferrer-Orta, C. et al., Sequential structures provide insights into the fidelity of RNA replication. Proc.Natl.Acad.Sci.Usa (2007)

Release Date

2007-06-26

Peptides

RNA-dependent RNA polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-dependent RNA polymerase

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