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Reviewed, UniProtKB/Swiss-Prot P0AG55 (RL6_ECOLI)

Last modified June 16, 2009. Version 42. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

Names and origin

Protein namesRecommended name:
    50S ribosomal protein L6
Gene names
Name: rplF
Ordered Locus Names: b3305, JW3267
OrganismEscherichia coli (strain K12) [Complete proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length177 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level.

General annotation (Comments)

Function

This protein binds directly to at least 2 domains of the 23S ribosomal RNA, thus is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. HAMAP MF_01365

Gentamicin-resistant mutations in this protein affect translation fidelity. HAMAP MF_01365

Subunit structure

Part of the 50S ribosomal subunit. HAMAP MF_01365

Sequence similarities

Belongs to the ribosomal protein L6P family.

Mass spectrometry

Molecular mass is 18772.7 Da from positions 2 - 177. Determined by MALDI. Ref.9

Binary interactions

With

Entry

#Exp.

IntAct

Notes

gadEP632041EBI-546389,EBI-562022

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed Ref.1 Ref.5
Chain2 – 17717650S ribosomal protein L6 HAMAP MF_01365
PRO_0000131048

Amino acid modifications

Modified residue441N6-acetyllysine Ref.10

Natural variations

Natural variant152 – 17726RRPEP…EAKKK → AL in gentamicin resistant strain: GS50-15. HAMAP MF_01365
Natural variant158 – 17720KGKGV…EAKKK → TL in gentamicin resistant strain: GS20-8. HAMAP MF_01365

Experimental info

Sequence conflict821G → D in CAA25720. Ref.2
Sequence conflict881Q → E AA sequence Ref.1

Secondary structure

........................ 177
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P0AG55-1 [UniParc].

Last modified January 23, 2007. Version 2.
Checksum: 946B64E9FA42FE61

FASTA17718,904
        10         20         30         40         50         60 
MSRVAKAPVV VPAGVDVKIN GQVITIKGKN GELTRTLNDA VEVKHADNTL TFGPRDGYAD 

        70         80         90        100        110        120 
GWAQAGTARA LLNSMVIGVT EGFTKKLQLV GVGYRAAVKG NVINLSLGFS HPVDHQLPAG 

       130        140        150        160        170 
ITAECPTQTE IVLKGADKQV IGQVAADLRA YRRPEPYKGK GVRYADEVVR TKEAKKK 

« Hide

References

« Hide 'large scale' references
[1]"The primary structure of protein L6 from the aminoacyl-tRNA binding site of the Escherichia coli ribosome."
Chen R., Arfsten U., Chen-Schmeisser U.
Hoppe-Seyler's Z. Physiol. Chem. 358:531-535(1977) [PubMed: 324885] [Abstract]
Cited for: PRELIMINARY PROTEIN SEQUENCE OF 2-177.
Strain: K.
[2]"The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene."
Cerretti D.P., Dean D., Davis G.R., Bedwell D.M., Nomura M.
Nucleic Acids Res. 11:2599-2616(1983) [PubMed: 6222285] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[3]"The complete genome sequence of Escherichia coli K-12."
Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y.
Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[4]"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]"Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12."
Link A.J., Robison K., Church G.M.
Electrophoresis 18:1259-1313(1997) [PubMed: 9298646] [Abstract]
Cited for: PROTEIN SEQUENCE OF 2-13.
Strain: K12 / EMG2.
[6]"Alteration of ribosomal protein L6 in gentamicin-resistant strains of Escherichia coli. Effects on fidelity of protein synthesis."
Kuehberger R., Piepersberg W., Petzet A., Buckel P., Boeck A.
Biochemistry 18:187-193(1979) [PubMed: 369594] [Abstract]
Cited for: ISOLATION, CHARACTERIZATION OF VARIANTS GENTAMICIN-RESISTANT GE20-8; GS20-10 AND GS50-15.
Strain: K12 / A19.
[7]"The use of 2-iminothiolane as an RNA-protein cross-linking agent in Escherichia coli ribosomes, and the localisation on 23S RNA of sites cross-linked to proteins L4, L6, L21, L23, L27 and L29."
Wower I., Wower J., Meinke M., Brimacombe R.
Nucleic Acids Res. 9:4285-4302(1981) [PubMed: 6170935] [Abstract]
Cited for: CROSS-LINKING TO 23S RRNA.
Strain: MRE-600.
[8]"Ribosomal proteins S5 and L6: high-resolution crystal structures and roles in protein synthesis and antibiotic resistance."
Davies C., Bussiere D.E., Golden B.L., Porter S.J., Ramakrishnan V., White S.W.
J. Mol. Biol. 279:873-888(1998) [PubMed: 9642068] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF VARIANTS GENTAMICIN-RESISTANT.
[9]"Observation of Escherichia coli ribosomal proteins and their posttranslational modifications by mass spectrometry."
Arnold R.J., Reilly J.P.
Anal. Biochem. 269:105-112(1999) [PubMed: 10094780] [Abstract]
Cited for: MASS SPECTROMETRY.
Strain: K12 / ATCC 25404 / DSM 5698 / NCIMB 11290.
[10]"Lysine acetylation is a highly abundant and evolutionarily conserved modification in Escherichia coli."
Zhang J., Sprung R., Pei J., Tan X., Kim S., Zhu H., Liu C.F., Grishin N.V., Zhao Y.
Mol. Cell. Proteomics 8:215-225(2009) [PubMed: 18723842] [Abstract]
Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-44, MASS SPECTROMETRY.
[11]"The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution."
Mueller F., Sommer I., Baranov P., Matadeen R., Stoldt M., Woehnert J., Goerlach M., van Heel M., Brimacombe R.
J. Mol. Biol. 298:35-59(2000) [PubMed: 10756104] [Abstract]
Cited for: 3D-STRUCTURE MODELING.
[12]"Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement."
Gao H., Sengupta J., Valle M., Korostelev A., Eswar N., Stagg S.M., Van Roey P., Agrawal R.K., Harvey S.C., Sali A., Chapman M.S., Frank J.
Cell 113:789-801(2003) [PubMed: 12809609] [Abstract]
Cited for: STRUCTURE BY ELECTRON MICROSCOPY (11.50 ANGSTROMS).
Strain: MRE-600.
[13]"Structures of the bacterial ribosome at 3.5 A resolution."
Schuwirth B.S., Borovinskaya M.A., Hau C.W., Zhang W., Vila-Sanjurjo A., Holton J.M., Cate J.H.D.
Science 310:827-834(2005) [PubMed: 16272117] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.46 ANGSTROMS) OF 2 DIFFERENT RIBOSOME STRUCTURES.
Strain: MRE-600.
+Additional computationally mapped references.

Cross-references

Sequence databases

X01563 Genomic DNA. Translation: CAA25720.1.
U18997 Genomic DNA. Translation: AAA58102.1.
U00096 Genomic DNA. Translation: AAC76330.1.
AP009048 Genomic DNA. Translation: BAE77986.1.
PIRR5EC6. D65123.
RefSeqAP_004485.1.
NP_417764.1.

3D structure databases

EntryMethodResolution (Å)ChainPositionsPDBsum
1P85electron microscopy-E2-177[»]
1P86electron microscopy11.50E1-177[»]
1VS6X-ray3.46G1-177[»]
1VS8X-ray3.46G1-177[»]
2AW4X-ray3.46G1-177[»]
2AWBX-ray3.46G1-177[»]
2GYAelectron microscopy-E6-171[»]
2GYCelectron microscopy2.00E6-172[»]
2I2TX-ray3.22G2-176[»]
2I2VX-ray3.22G2-176[»]
2J28electron microscopy8.00G2-176[»]
2QAMX-ray3.21G2-177[»]
2QAOX-ray3.21G2-177[»]
2QBAX-ray3.54G2-177[»]
2QBCX-ray3.54G2-177[»]
2QBEX-ray3.30G2-177[»]
2QBGX-ray3.30G2-177[»]
2QBIX-ray4.00G2-177[»]
2QBKX-ray4.00G2-177[»]
2QOVX-ray3.93G2-177[»]
2QOXX-ray3.93G2-177[»]
2QOZX-ray3.50G2-177[»]
2QP1X-ray3.50G2-177[»]
2RDOelectron microscopy9.10G2-177[»]
2VHMX-ray3.74G2-177[»]
2VHNX-ray3.74G2-177[»]
2Z4LX-ray4.45G2-177[»]
2Z4NX-ray4.45G2-177[»]
3BBXelectron microscopy-G2-177[»]
3FIKelectron microscopy-G2-177[»]
ModBaseSearch...

Protein-protein interaction databases

IntActP0AG55. 83 interactions.

2-D gel databases

ECO2DBASEI017.2. 6TH EDITION.

Proteomic databases

PRIDEP0AG55.

Genome annotation databases

GeneID947803.
GenomeReviewsGene locus JW3267 in contig AP009048_GR.
Gene locus b3305 in contig U00096_GR.
KEGGecj:JW3267.
eco:b3305.

Organism-specific databases

EchoBASEEB0862.
EcoGeneEG10869. rplF.
CMRSearch...

Phylogenomic databases

HOGENOMP0AG55.
OMAP0AG55. RTLVANM.

Enzyme and pathway databases

BioCycEcoCyc:EG10869-MON.

Family and domain databases

HAMAPMF_01365.
[Tree]
InterProIPR000702. Ribosomal_L6.
IPR020040. Ribosomal_L6_a/b-dom.
IPR002358. Ribosomal_L6_CS.
IPR019906. Ribosomal_L6_sg.
[Graphical view]
Gene3DG3DSA:3.90.930.12. Ribosomal_L6. 2 hits.
PANTHERPTHR11655. Ribosomal_L6. 1 hit.
PfamPF00347. Ribosomal_L6. 2 hits.
[Graphical view]
PIRSFPIRSF002162. Ribosomal_L6. 1 hit.
PRINTSPR00059. RIBOSOMALL6.
ProDomPD002236. Ribosomal_L6. 1 hit.
[Graphical view] [Entries sharing at least one domain]
TIGRFAMsTIGR03654. L6_bact. 1 hit.
PROSITEPS00525. RIBOSOMAL_L6_1. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameRL6_ECOLI
AccessionPrimary (citable) accession number: P0AG55
Secondary accession number(s): P02390, Q2M6X0
Entry history
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: January 23, 2007
Last modified: June 16, 2009
This is version 42 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

Relevant documents

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Ribosomal proteins

Ribosomal proteins families and list of entries

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents