5x6c

Crystal structure of SepRS-SepCysE from Methanocaldococcus jannaschiiCrystal structure of SepRS-SepCysE from Methanocaldococcus jannaschii

Structural highlights

5x6c is a 4 chain structure with sequence from Methanocaldococcus jannaschii DSM 2661. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.101Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SEPS_METJA Catalyzes the attachment of O-phosphoserine (Sep) to tRNA(Cys).^[1]

Publication Abstract from PubMed

Cysteine can be synthesized by tRNA-dependent mechanism using a two-step indirect pathway, where O-phosphoseryl-tRNA synthetase (SepRS) catalyzes the ligation of a mismatching O-phosphoserine (Sep) to tRNA(Cys) followed by the conversion of tRNA-bounded Sep into cysteine by Sep-tRNA:Cys-tRNA synthase (SepCysS). In ancestral methanogens, a third protein SepCysE forms a bridge between the two enzymes to create a ternary complex named the transsulfursome. By combination of X-ray crystallography, SAXS and EM, together with biochemical evidences, here we show that the three domains of SepCysE each bind SepRS, SepCysS, and tRNA(Cys), respectively, which mediates the dynamic architecture of the transsulfursome and thus enables a global long-range channeling of tRNA(Cys) between SepRS and SepCysS distant active sites. This channeling mechanism could facilitate the consecutive reactions of the two-step indirect pathway of Cys-tRNA(Cys) synthesis (tRNA-dependent cysteine biosynthesis) to prevent challenge of translational fidelity, and may reflect the mechanism that cysteine was originally added into genetic code.

Structural basis for tRNA-dependent cysteine biosynthesis.,Chen M, Kato K, Kubo Y, Tanaka Y, Liu Y, Long F, Whitman WB, Lill P, Gatsogiannis C, Raunser S, Shimizu N, Shinoda A, Nakamura A, Tanaka I, Yao M Nat Commun. 2017 Nov 15;8(1):1521. doi: 10.1038/s41467-017-01543-y. PMID:29142195^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Sauerwald A, Zhu W, Major TA, Roy H, Palioura S, Jahn D, Whitman WB, Yates JR 3rd, Ibba M, Soll D. RNA-dependent cysteine biosynthesis in archaea. Science. 2005 Mar 25;307(5717):1969-72. PMID:15790858 doi:http://dx.doi.org/10.1126/science.1108329
↑ Chen M, Kato K, Kubo Y, Tanaka Y, Liu Y, Long F, Whitman WB, Lill P, Gatsogiannis C, Raunser S, Shimizu N, Shinoda A, Nakamura A, Tanaka I, Yao M. Structural basis for tRNA-dependent cysteine biosynthesis. Nat Commun. 2017 Nov 15;8(1):1521. doi: 10.1038/s41467-017-01543-y. PMID:29142195 doi:http://dx.doi.org/10.1038/s41467-017-01543-y

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OCA

[1] Sauerwald A, Zhu W, Major TA, Roy H, Palioura S, Jahn D, Whitman WB, Yates JR 3rd, Ibba M, Soll D. RNA-dependent cysteine biosynthesis in archaea. Science. 2005 Mar 25;307(5717):1969-72. PMID:15790858 doi:http://dx.doi.org/10.1126/science.1108329

[2] Chen M, Kato K, Kubo Y, Tanaka Y, Liu Y, Long F, Whitman WB, Lill P, Gatsogiannis C, Raunser S, Shimizu N, Shinoda A, Nakamura A, Tanaka I, Yao M. Structural basis for tRNA-dependent cysteine biosynthesis. Nat Commun. 2017 Nov 15;8(1):1521. doi: 10.1038/s41467-017-01543-y. PMID:29142195 doi:http://dx.doi.org/10.1038/s41467-017-01543-y

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