RNA, volume 27, issue 5, pages 584-590
Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide
1
SLOAN KETTERING INSTITUTE
2
Molecular Biology Program, Sloan Kettering Institute, New York, New York 10065, USA
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Publication type: Journal Article
Publication date: 2021-02-22
PubMed ID:
33619169
Molecular Biology
Abstract
RtcB enzymes comprise a widely distributed family of manganese- and GTP-dependent RNA repair enzymes that join 2′,3′-cyclic phosphate ends to 5′-OH ends via RtcB-(histidinyl-N)–GMP, RNA 3′-phosphate, and RNA3′pp5′G intermediates. RtcB can ligate either 5′-OH RNA or 5′-OH DNA strands in vitro. The nucleic acid contacts of RtcB are uncharted. Here we report a 2.7 Å crystal structure of Pyrococcus horikoshii RtcB in complex with a 6-mer 5′-OH DNA oligonucleotide HOA1pT2pG3pT4pC5pC6, which reveals enzymic contacts of Asn202 to the terminal 5′-OH nucleophile; Arg238 to the A1pT2 and T2pG3 phosphates; Arg190 and Gln194 to the T2pG3 phosphate; and an Arg190 π-cation interaction with the G3 nucleobase. The structural insights affirm functional studies of E. coli RtcB that implicated the conserved counterpart of Arg238 in engagement of the 5′-OH strand for ligation. The essential active site Cys98 that coordinates two manganese ions is oxidized to cysteine sulfonic acid in our structure, raising the prospect that RtcB activity might be sensitive to modulation during oxidative stress.
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Banerjee A., Goldgur Y., Shuman S. Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide // RNA. 2021. Vol. 27. No. 5. pp. 584-590.
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Banerjee A., Goldgur Y., Shuman S. Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide // RNA. 2021. Vol. 27. No. 5. pp. 584-590.
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TY - JOUR
DO - 10.1261/rna.078692.121
UR - https://doi.org/10.1261%2Frna.078692.121
TI - Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide
T2 - RNA
AU - Banerjee, Ankan
AU - Goldgur, Yehuda
AU - Shuman, Stewart
PY - 2021
DA - 2021/02/22 00:00:00
PB - Cold Spring Harbor Laboratory
SP - 584-590
IS - 5
VL - 27
PMID - 33619169
SN - 1355-8382
SN - 1469-9001
ER -
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@article{2021_Banerjee
author = {Ankan Banerjee and Yehuda Goldgur and Stewart Shuman},
title = {Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide},
journal = {RNA},
year = {2021},
volume = {27},
publisher = {Cold Spring Harbor Laboratory},
month = {feb},
url = {https://doi.org/10.1261%2Frna.078692.121},
number = {5},
pages = {584--590},
doi = {10.1261/rna.078692.121}
}
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MLA
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Banerjee, Ankan, et al. “Structure of 3′-PO4/5′-OH RNA ligase RtcB in complex with a 5′-OH oligonucleotide.” RNA, vol. 27, no. 5, Feb. 2021, pp. 584-590. https://doi.org/10.1261%2Frna.078692.121.