RL23_DEIRA
ID RL23_DEIRA Reviewed; 95 AA.
AC Q9RXK0;
DT 15-MAR-2004, integrated into UniProtKB/Swiss-Prot.
DT 23-JAN-2007, sequence version 3.
DT 25-MAY-2022, entry version 132.
DE RecName: Full=50S ribosomal protein L23 {ECO:0000255|HAMAP-Rule:MF_01369};
GN Name=rplW {ECO:0000255|HAMAP-Rule:MF_01369}; OrderedLocusNames=DR_0313;
OS Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG
OS 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422).
OC Bacteria; Deinococcus-Thermus; Deinococci; Deinococcales; Deinococcaceae;
OC Deinococcus.
OX NCBI_TaxID=243230;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=10567266; DOI=10.1126/science.286.5444.1571;
RA White O., Eisen J.A., Heidelberg J.F., Hickey E.K., Peterson J.D.,
RA Dodson R.J., Haft D.H., Gwinn M.L., Nelson W.C., Richardson D.L.,
RA Moffat K.S., Qin H., Jiang L., Pamphile W., Crosby M., Shen M.,
RA Vamathevan J.J., Lam P., McDonald L.A., Utterback T.R., Zalewski C.,
RA Makarova K.S., Aravind L., Daly M.J., Minton K.W., Fleischmann R.D.,
RA Ketchum K.A., Nelson K.E., Salzberg S.L., Smith H.O., Venter J.C.,
RA Fraser C.M.;
RT "Genome sequence of the radioresistant bacterium Deinococcus radiodurans
RT R1.";
RL Science 286:1571-1577(1999).
RN [2]
RP PROTEIN SEQUENCE OF 2-6, X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S
RP SUBUNIT, CONTACTS WITH 23S RRNA, AND CONTACTS WITH L29.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=11733066; DOI=10.1016/s0092-8674(01)00546-3;
RA Harms J., Schluenzen F., Zarivach R., Bashan A., Gat S., Agmon I.,
RA Bartels H., Franceschi F., Yonath A.;
RT "High resolution structure of the large ribosomal subunit from a mesophilic
RT eubacterium.";
RL Cell 107:679-688(2001).
RN [3]
RP X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP FIVE ANTIBIOTICS.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=11677599; DOI=10.1038/35101544;
RA Schluenzen F., Zarivach R., Harms J., Bashan A., Tocilj A., Albrecht R.,
RA Yonath A., Franceschi F.;
RT "Structural basis for the interaction of antibiotics with the peptidyl
RT transferase centre in eubacteria.";
RL Nature 413:814-821(2001).
RN [4]
RP X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP TRNA MIMICS.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=12535524; DOI=10.1016/s1097-2765(03)00009-1;
RA Bashan A., Agmon I., Zarivach R., Schluenzen F., Harms J., Berisio R.,
RA Bartels H., Franceschi F., Auerbach T., Hansen H.A., Kossoy E., Kessler M.,
RA Yonath A.;
RT "Structural basis of the ribosomal machinery for peptide bond formation,
RT translocation, and nascent chain progression.";
RL Mol. Cell 11:91-102(2003).
RN [5]
RP X-RAY CRYSTALLOGRAPHY (3.3 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP MODIFIED MACROLIDE ANTIBIOTICS.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=12623020; DOI=10.1016/s0969-2126(03)00022-4;
RA Schluenzen F., Harms J.M., Franceschi F., Hansen H.A., Bartels H.,
RA Zarivach R., Yonath A.;
RT "Structural basis for the antibiotic activity of ketolides and azalides.";
RL Structure 11:329-338(2003).
RN [6]
RP X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP TROLEANDOMYCIN.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=12665853; DOI=10.1038/nsb915;
RA Berisio R., Schluenzen F., Harms J., Bashan A., Auerbach T., Baram D.,
RA Yonath A.;
RT "Structural insight into the role of the ribosomal tunnel in cellular
RT regulation.";
RL Nat. Struct. Biol. 10:366-370(2003).
RN [7]
RP X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP THE STREPTOGRAMINS QUINUPRISTIN AND DALFOPRISTIN.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=15059283; DOI=10.1186/1741-7007-2-4;
RA Harms J.M., Schluenzen F., Fucini P., Bartels H., Yonath A.;
RT "Alterations at the peptidyl transferase centre of the ribosome induced by
RT the synergistic action of the streptogramins dalfopristin and
RT quinupristin.";
RL BMC Biol. 2:4-4(2004).
RN [8]
RP X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP TIAMULIN.
RC STRAIN=ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB
RC 9279 / R1 / VKM B-1422;
RX PubMed=15554968; DOI=10.1111/j.1365-2958.2004.04346.x;
RA Schluenzen F., Pyetan E., Fucini P., Yonath A., Harms J.M.;
RT "Inhibition of peptide bond formation by pleuromutilins: the structure of
RT the 50S ribosomal subunit from Deinococcus radiodurans in complex with
RT tiamulin.";
RL Mol. Microbiol. 54:1287-1294(2004).
RN [9]
RP X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP TRIGGER FACTOR.
RX PubMed=16091460; DOI=10.1073/pnas.0505581102;
RA Baram D., Pyetan E., Sittner A., Auerbach-Nevo T., Bashan A., Yonath A.;
RT "Structure of trigger factor binding domain in biologically homologous
RT complex with eubacterial ribosome reveals its chaperone action.";
RL Proc. Natl. Acad. Sci. U.S.A. 102:12017-12022(2005).
RN [10]
RP X-RAY CRYSTALLOGRAPHY (3.35 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH
RP TRIGGER FACTOR.
RX PubMed=16271892; DOI=10.1016/j.str.2005.08.007;
RA Schluenzen F., Wilson D.N., Tian P., Harms J.M., McInnes S.J.,
RA Hansen H.A.S., Albrecht R., Buerger J., Wilbanks S.M., Fucini P.;
RT "The binding mode of the trigger factor on the ribosome: implications for
RT protein folding and SRP interaction.";
RL Structure 13:1685-1694(2005).
CC -!- FUNCTION: One of the early assembly protein (By similarity) it binds
CC 23S rRNA. One of the proteins that surrounds the polypeptide exit
CC tunnel on the outside of the subunit. Forms the main docking site for
CC trigger factor binding to the ribosome (PubMed:16091460 and
CC PubMed:16271892). {ECO:0000250, ECO:0000269|PubMed:16091460,
CC ECO:0000269|PubMed:16271892}.
CC -!- SUBUNIT: Part of the 50S ribosomal subunit. Contacts protein L29 and
CC trigger factor when it is bound to the ribosome (PubMed:16091460 and
CC PubMed:16271892). {ECO:0000255|HAMAP-Rule:MF_01369,
CC ECO:0000269|PubMed:11677599, ECO:0000269|PubMed:12535524,
CC ECO:0000269|PubMed:12623020, ECO:0000269|PubMed:12665853,
CC ECO:0000269|PubMed:15059283, ECO:0000269|PubMed:15554968,
CC ECO:0000269|PubMed:16091460, ECO:0000269|PubMed:16271892}.
CC -!- SIMILARITY: Belongs to the universal ribosomal protein uL23 family.
CC {ECO:0000255|HAMAP-Rule:MF_01369}.
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DR EMBL; AE000513; AAF09894.1; -; Genomic_DNA.
DR PIR; A75534; A75534.
DR RefSeq; NP_294036.1; NC_001263.1.
DR RefSeq; WP_010886958.1; NZ_CP015081.1.
DR PDB; 1NKW; X-ray; 3.10 A; R=1-95.
DR PDB; 1NWX; X-ray; 3.50 A; R=2-95.
DR PDB; 1NWY; X-ray; 3.30 A; R=2-95.
DR PDB; 1SM1; X-ray; 3.42 A; R=1-95.
DR PDB; 1XBP; X-ray; 3.50 A; R=2-95.
DR PDB; 2AAR; X-ray; 3.50 A; R=1-95.
DR PDB; 2D3O; X-ray; 3.35 A; R=1-95.
DR PDB; 2ZJP; X-ray; 3.70 A; Q=1-95.
DR PDB; 2ZJQ; X-ray; 3.30 A; Q=1-95.
DR PDB; 2ZJR; X-ray; 2.91 A; Q=1-95.
DR PDB; 3CF5; X-ray; 3.30 A; Q=1-95.
DR PDB; 3DLL; X-ray; 3.50 A; Q=1-95.
DR PDB; 3PIO; X-ray; 3.25 A; Q=1-95.
DR PDB; 3PIP; X-ray; 3.45 A; Q=1-95.
DR PDB; 4IO9; X-ray; 3.20 A; Q=1-95.
DR PDB; 4IOA; X-ray; 3.20 A; Q=1-95.
DR PDB; 4IOC; X-ray; 3.60 A; Q=1-95.
DR PDB; 4U67; X-ray; 3.65 A; Q=1-95.
DR PDB; 4V49; X-ray; 8.70 A; R=2-94.
DR PDB; 4V4A; X-ray; 9.50 A; R=2-94.
DR PDB; 4V4G; X-ray; 11.50 A; U=2-94.
DR PDB; 4WFN; X-ray; 3.54 A; Q=1-95.
DR PDB; 5DM6; X-ray; 2.90 A; Q=2-94.
DR PDB; 5DM7; X-ray; 3.00 A; Q=2-94.
DR PDB; 5JVG; X-ray; 3.43 A; Q=1-95.
DR PDB; 5JVH; X-ray; 3.58 A; Q=1-95.
DR PDB; 7A0R; X-ray; 3.30 A; Q=2-94.
DR PDB; 7A0S; X-ray; 3.22 A; Q=2-94.
DR PDB; 7A18; X-ray; 3.40 A; Q=2-94.
DR PDBsum; 1NKW; -.
DR PDBsum; 1NWX; -.
DR PDBsum; 1NWY; -.
DR PDBsum; 1SM1; -.
DR PDBsum; 1XBP; -.
DR PDBsum; 2AAR; -.
DR PDBsum; 2D3O; -.
DR PDBsum; 2ZJP; -.
DR PDBsum; 2ZJQ; -.
DR PDBsum; 2ZJR; -.
DR PDBsum; 3CF5; -.
DR PDBsum; 3DLL; -.
DR PDBsum; 3PIO; -.
DR PDBsum; 3PIP; -.
DR PDBsum; 4IO9; -.
DR PDBsum; 4IOA; -.
DR PDBsum; 4IOC; -.
DR PDBsum; 4U67; -.
DR PDBsum; 4V49; -.
DR PDBsum; 4V4A; -.
DR PDBsum; 4V4G; -.
DR PDBsum; 4WFN; -.
DR PDBsum; 5DM6; -.
DR PDBsum; 5DM7; -.
DR PDBsum; 5JVG; -.
DR PDBsum; 5JVH; -.
DR PDBsum; 7A0R; -.
DR PDBsum; 7A0S; -.
DR PDBsum; 7A18; -.
DR AlphaFoldDB; Q9RXK0; -.
DR SMR; Q9RXK0; -.
DR IntAct; Q9RXK0; 1.
DR STRING; 243230.DR_0313; -.
DR EnsemblBacteria; AAF09894; AAF09894; DR_0313.
DR KEGG; dra:DR_0313; -.
DR PATRIC; fig|243230.17.peg.479; -.
DR eggNOG; COG0089; Bacteria.
DR HOGENOM; CLU_037562_3_1_0; -.
DR InParanoid; Q9RXK0; -.
DR OMA; FEVDHRA; -.
DR OrthoDB; 1978865at2; -.
DR EvolutionaryTrace; Q9RXK0; -.
DR Proteomes; UP000002524; Chromosome I.
DR GO; GO:0022625; C:cytosolic large ribosomal subunit; IBA:GO_Central.
DR GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-UniRule.
DR GO; GO:0003735; F:structural constituent of ribosome; IBA:GO_Central.
DR GO; GO:0000027; P:ribosomal large subunit assembly; IBA:GO_Central.
DR GO; GO:0006412; P:translation; IEA:UniProtKB-UniRule.
DR Gene3D; 3.30.70.330; -; 1.
DR HAMAP; MF_01369_B; Ribosomal_L23_B; 1.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR012678; Ribosomal_L23/L15e_core_dom_sf.
DR InterPro; IPR001014; Ribosomal_L23/L25_CS.
DR InterPro; IPR013025; Ribosomal_L25/23.
DR PANTHER; PTHR11620; PTHR11620; 1.
DR Pfam; PF00276; Ribosomal_L23; 1.
DR SUPFAM; SSF54189; SSF54189; 1.
DR PROSITE; PS00050; RIBOSOMAL_L23; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Direct protein sequencing; Reference proteome;
KW Ribonucleoprotein; Ribosomal protein; RNA-binding; rRNA-binding.
FT INIT_MET 1
FT /note="Removed"
FT /evidence="ECO:0000269|PubMed:11733066"
FT CHAIN 2..95
FT /note="50S ribosomal protein L23"
FT /id="PRO_0000129406"
FT HELIX 3..6
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 7..10
FT /evidence="ECO:0007829|PDB:5DM6"
FT HELIX 14..21
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 24..29
FT /evidence="ECO:0007829|PDB:5DM6"
FT HELIX 35..46
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 50..58
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 62..65
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 68..71
FT /evidence="ECO:0007829|PDB:5DM6"
FT STRAND 75..83
FT /evidence="ECO:0007829|PDB:5DM6"
FT HELIX 89..92
FT /evidence="ECO:0007829|PDB:5DM6"
SQ SEQUENCE 95 AA; 10522 MW; 09D8AA73699D6046 CRC64;
MSHYDILQAP VISEKAYSAM ERGVYSFWVS PKATKTEIKD AIQQAFGVRV IGISTMNVPG
KRKRVGRFIG QRNDRKKAIV RLAEGQSIEA LAGQA
