RL4_BACSU
ID RL4_BACSU Reviewed; 207 AA.
AC P42921;
DT 01-NOV-1995, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1995, sequence version 1.
DT 03-AUG-2022, entry version 133.
DE RecName: Full=50S ribosomal protein L4 {ECO:0000255|HAMAP-Rule:MF_01328};
GN Name=rplD {ECO:0000255|HAMAP-Rule:MF_01328}; OrderedLocusNames=BSU01170;
OS Bacillus subtilis (strain 168).
OC Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus.
OX NCBI_TaxID=224308;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=SG38;
RX PubMed=9371452; DOI=10.1128/jb.179.22.7046-7054.1997;
RA Li X., Lindahl L., Sha Y., Zengel J.M.;
RT "Analysis of the Bacillus subtilis S10 ribosomal protein gene cluster
RT identifies two promoters that may be responsible for transcription of the
RT entire 15-kilobase S10-spc-alpha cluster.";
RL J. Bacteriol. 179:7046-7054(1997).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=168;
RX PubMed=8969501; DOI=10.1099/13500872-142-11-3039;
RA Yasumoto K., Liu H., Jeong S.M., Ohashi Y., Kakinuma S., Tanaka K.,
RA Kawamura F., Yoshikawa H., Takahashi H.;
RT "Sequence analysis of a 50 kb region between spo0H and rrnH on the Bacillus
RT subtilis chromosome.";
RL Microbiology 142:3039-3046(1996).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=168;
RX PubMed=9384377; DOI=10.1038/36786;
RA Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V.,
RA Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R.,
RA Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S.,
RA Bruschi C.V., Caldwell B., Capuano V., Carter N.M., Choi S.-K.,
RA Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F.,
RA Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D.,
RA Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M.,
RA Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P.,
RA Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K.,
RA Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S.,
RA Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y.,
RA Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G.,
RA Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J.,
RA Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C.,
RA Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S.,
RA Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B.,
RA Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S.,
RA Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M.,
RA Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y.,
RA Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J.,
RA Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A.,
RA Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M.,
RA Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S.,
RA Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E.,
RA Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K.,
RA Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E.,
RA Yoshikawa H., Danchin A.;
RT "The complete genome sequence of the Gram-positive bacterium Bacillus
RT subtilis.";
RL Nature 390:249-256(1997).
RN [4] {ECO:0007744|PDB:6HA1, ECO:0007744|PDB:6HA8}
RP STRUCTURE BY ELECTRON MICROSCOPY (3.10 ANGSTROMS) OF 1-207 WITH AND WITHOUT
RP VIRGINIAMYCIN M.
RX PubMed=30126986; DOI=10.1073/pnas.1808535115;
RA Crowe-McAuliffe C., Graf M., Huter P., Takada H., Abdelshahid M.,
RA Novacek J., Murina V., Atkinson G.C., Hauryliuk V., Wilson D.N.;
RT "Structural basis for antibiotic resistance mediated by the Bacillus
RT subtilis ABCF ATPase VmlR.";
RL Proc. Natl. Acad. Sci. U.S.A. 115:8978-8983(2018).
CC -!- FUNCTION: One of the primary rRNA binding proteins, this protein
CC initially binds near the 5'-end of the 23S rRNA. It is important during
CC the early stages of 50S assembly. It makes multiple contacts with
CC different domains of the 23S rRNA in the assembled 50S subunit and
CC ribosome. {ECO:0000255|HAMAP-Rule:MF_01328}.
CC -!- FUNCTION: Forms part of the polypeptide exit tunnel.
CC {ECO:0000255|HAMAP-Rule:MF_01328}.
CC -!- SUBUNIT: Part of the 50S ribosomal subunit.
CC {ECO:0000269|PubMed:30126986}.
CC -!- SIMILARITY: Belongs to the universal ribosomal protein uL4 family.
CC {ECO:0000255|HAMAP-Rule:MF_01328}.
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DR EMBL; U43929; AAC45957.1; -; Genomic_DNA.
DR EMBL; D50302; BAA08832.1; -; Genomic_DNA.
DR EMBL; AL009126; CAB11893.1; -; Genomic_DNA.
DR PIR; H69694; H69694.
DR RefSeq; NP_387998.1; NC_000964.3.
DR RefSeq; WP_004399658.1; NZ_JNCM01000029.1.
DR PDB; 3J3V; EM; 13.30 A; E=1-207.
DR PDB; 3J3W; EM; 10.70 A; E=1-207.
DR PDB; 3J9W; EM; 3.90 A; BF=1-207.
DR PDB; 5NJT; EM; 3.80 A; Y=2-206.
DR PDB; 6HA1; EM; 3.10 A; E=1-207.
DR PDB; 6HA8; EM; 3.50 A; E=1-207.
DR PDB; 6HTQ; EM; 4.50 A; E=2-206.
DR PDB; 6PPF; EM; 3.40 A; E=1-207.
DR PDB; 6PPK; EM; 4.40 A; E=1-207.
DR PDB; 6PVK; EM; 3.40 A; E=1-207.
DR PDB; 6TNN; EM; 3.07 A; Y=1-207.
DR PDB; 6TPQ; EM; 3.07 A; Y=1-207.
DR PDB; 7AQC; EM; 2.99 A; E=1-207.
DR PDB; 7AQD; EM; 3.10 A; E=1-207.
DR PDB; 7AS8; EM; 2.90 A; G=1-207.
DR PDB; 7AS9; EM; 3.50 A; G=1-207.
DR PDB; 7O5B; EM; 3.33 A; b=1-207.
DR PDB; 7OPE; EM; 3.20 A; G=1-207.
DR PDB; 7QV1; EM; 3.50 A; E=1-207.
DR PDB; 7QV2; EM; 3.50 A; E=1-207.
DR PDB; 7QV3; EM; 5.14 A; E=1-207.
DR PDBsum; 3J3V; -.
DR PDBsum; 3J3W; -.
DR PDBsum; 3J9W; -.
DR PDBsum; 5NJT; -.
DR PDBsum; 6HA1; -.
DR PDBsum; 6HA8; -.
DR PDBsum; 6HTQ; -.
DR PDBsum; 6PPF; -.
DR PDBsum; 6PPK; -.
DR PDBsum; 6PVK; -.
DR PDBsum; 6TNN; -.
DR PDBsum; 6TPQ; -.
DR PDBsum; 7AQC; -.
DR PDBsum; 7AQD; -.
DR PDBsum; 7AS8; -.
DR PDBsum; 7AS9; -.
DR PDBsum; 7O5B; -.
DR PDBsum; 7OPE; -.
DR PDBsum; 7QV1; -.
DR PDBsum; 7QV2; -.
DR PDBsum; 7QV3; -.
DR AlphaFoldDB; P42921; -.
DR SMR; P42921; -.
DR IntAct; P42921; 1.
DR STRING; 224308.BSU01170; -.
DR jPOST; P42921; -.
DR PaxDb; P42921; -.
DR PRIDE; P42921; -.
DR EnsemblBacteria; CAB11893; CAB11893; BSU_01170.
DR GeneID; 936690; -.
DR KEGG; bsu:BSU01170; -.
DR PATRIC; fig|224308.179.peg.120; -.
DR eggNOG; COG0088; Bacteria.
DR InParanoid; P42921; -.
DR OMA; PQVHILE; -.
DR PhylomeDB; P42921; -.
DR BioCyc; BSUB:BSU01170-MON; -.
DR Proteomes; UP000001570; Chromosome.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProt.
DR GO; GO:0005840; C:ribosome; IEA:UniProtKB-KW.
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:0006412; P:translation; IEA:UniProtKB-UniRule.
DR Gene3D; 3.40.1370.10; -; 1.
DR HAMAP; MF_01328_B; Ribosomal_L4_B; 1.
DR InterPro; IPR002136; Ribosomal_L4/L1e.
DR InterPro; IPR023574; Ribosomal_L4_dom_sf.
DR InterPro; IPR013005; Ribosomal_uL4/L1e.
DR PANTHER; PTHR10746; PTHR10746; 1.
DR Pfam; PF00573; Ribosomal_L4; 1.
DR SUPFAM; SSF52166; SSF52166; 1.
DR TIGRFAMs; TIGR03953; rplD_bact; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Reference proteome; Ribonucleoprotein; Ribosomal protein;
KW RNA-binding; rRNA-binding.
FT CHAIN 1..207
FT /note="50S ribosomal protein L4"
FT /id="PRO_0000129183"
FT REGION 48..85
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 49..63
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT STRAND 3..7
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 9..11
FT /evidence="ECO:0007829|PDB:7AQC"
FT STRAND 13..18
FT /evidence="ECO:0007829|PDB:7AS8"
FT TURN 21..23
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 24..26
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 30..43
FT /evidence="ECO:0007829|PDB:7AS8"
FT TURN 54..56
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 57..59
FT /evidence="ECO:0007829|PDB:6TNN"
FT STRAND 67..72
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 77..79
FT /evidence="ECO:0007829|PDB:7AQC"
FT STRAND 83..85
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 88..90
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 103..120
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 123..126
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 132..134
FT /evidence="ECO:0007829|PDB:6PPF"
FT HELIX 136..145
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 152..158
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 161..165
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 168..177
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 178..180
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 184..188
FT /evidence="ECO:0007829|PDB:7AS8"
FT STRAND 192..194
FT /evidence="ECO:0007829|PDB:7AS8"
FT HELIX 196..205
FT /evidence="ECO:0007829|PDB:7AS8"
SQ SEQUENCE 207 AA; 22391 MW; BF9DAD4CFA66725C CRC64;
MPKVALYNQN GSTAGDIELN ASVFGIEPNE SVVFDAILMQ RASLRQGTHK VKNRSEVRGG
GRKPWRQKGT GRARQGSIRS PQWRGGGVVF GPTPRSYSYK LPKKVRRLAI KSVLSSKVID
NNIIVLEDLT LDTAKTKEMA AILKGLSVEK KALIVTADAN EAVALSARNI PGVTVVEANG
INVLDVVNHE KLLITKAAVE KVEEVLA
