GenomeNet

Database: UniProt
Entry: P42921
LinkDB: P42921
Original site: P42921 
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   29-SEP-2021, entry version 130.
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}.
CC   ---------------------------------------------------------------------------
CC   Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC   Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC   ---------------------------------------------------------------------------
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   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   SMR; P42921; -.
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-MONOMER; -.
DR   Proteomes; UP000001570; Chromosome.
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
//
DBGET integrated database retrieval system