SMTL ID : 7lfq.1

Pyrococcus RNA ligase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x DA- DT- DG- DT- DC- DC: DNA (5'-D(*AP*TP*GP*TP*CP*C)-3')(Non-covalent)

DA-DT-DG-DT-DC-DC.1: 15 residues within 4Å: Chain A: Y.114, D.115, V.151, R.206, R.210, Q.214, G.219, S.220, G.221, N.222, H.223, R.258, G.259, H.262, R.270 Protein-ligand interaction information (PLIP) not available

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: G.89, Y.90, I.94, G.113, Y.114, K.371 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.90, A:Y.114 Salt bridges: A:K.371

1 x K: POTASSIUM ION(Non-covalent)

K.3: 8 residues within 4Å: Chain A: E.226, Q.228, P.398, G.399, S.400, T.403, A.404, S.405 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Banerjee, A. et al., Structure of 3'-PO 4 /5'-OH RNA ligase RtcB in complex with a 5'-OH oligonucleotide. Rna (2021)

Release Date

2021-03-03

Peptides

RNA-splicing ligase RtcB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-splicing ligase RtcB

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