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P45748 (RIMN_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 106. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
tRNA threonylcarbamoyladenosine biosynthesis protein RimN
Alternative name(s):
Ribosome maturation factor RimN
t(6)A37 threonylcarbamoyladenosine biosynthesis protein RimN
Gene names
Name:rimN
Synonyms:yrdC
Ordered Locus Names:b3282, JW3243
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length190 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t6A37) in tRNAs that read codons beginning with adenine. Binds ATP, and to fully modified tRNA(Thr) and partially modified tRNA(Thr). Could also be required for the maturation of 16S rRNA. Binds to double-stranded RNA but does not interact tightly with either of the ribosomal subunits, or the 70S particles. Ref.4 Ref.5

Subcellular location

Cytoplasm Potential HAMAP-Rule MF_01852.

Sequence similarities

Belongs to the SUA5 family. RimN subfamily.

Contains 1 YrdC-like domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 190190tRNA threonylcarbamoyladenosine biosynthesis protein RimN HAMAP-Rule MF_01852
PRO_0000202018

Regions

Domain7 – 190184YrdC-like

Experimental info

Mutagenesis501K → A: Loss of activity. Ref.5
Mutagenesis521R → A: Loss of activity. Ref.5
Mutagenesis561K → A: No change in activity. Ref.5
Mutagenesis1101R → A: No change in activity. Ref.5

Secondary structure

1 ................................. 190
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P45748 [UniParc].

Last modified July 15, 1998. Version 2.
Checksum: 4DCAAA8873FAB56F

FASTA19020,768
        10         20         30         40         50         60 
MNNNLQRDAI AAAIDVLNEE RVIAYPTEAV FGVGCDPDSE TAVMRLLELK QRPVDKGLIL 

        70         80         90        100        110        120 
IAANYEQLKP YIDDTMLTDV QRETIFSRWP GPVTFVFPAP ATTPRWLTGR FDSLAVRVTD 

       130        140        150        160        170        180 
HPLVVALCQA YGKPLVSTSA NLSGLPPCRT VDEVRAQFGA AFPVVPGETG GRLNPSEIRD 

       190 
ALTGELFRQG

« Hide

References

« Hide 'large scale' references
[1]"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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[2]"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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[3]"Enrichment of low abundance proteins of Escherichia coli by hydroxyapatite chromatography."
Fountoulakis M., Takacs M.-F., Berndt P., Langen H., Takacs B.
Electrophoresis 20:2181-2195(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY.
Strain: B / BL21.
[4]"The YrdC protein -- a putative ribosome maturation factor."
Kaczanowska M., Ryden-Aulin M.
Biochim. Biophys. Acta 1727:87-96(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION IN MATURATION OF 16S RRNA.
Strain: K12 / MG1655 / ATCC 47076.
[5]"The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNA."
El Yacoubi B., Lyons B., Cruz Y., Reddy R., Nordin B., Agnelli F., Williamson J.R., Schimmel P., Swairjo M.A., de Crecy-Lagard V.
Nucleic Acids Res. 37:2894-2909(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, ATP-BINDING, TRNA-BINDING, MUTAGENESIS OF LYS-50; ARG-52; LYS-56 AND ARG-110.
Strain: K12 / MG1655 / ATCC 47076.
[6]"The structure of the yrdC gene product from Escherichia coli reveals a new fold and suggests a role in RNA binding."
Teplova M., Tereshko V., Sanishvili R., Joachimiak A., Bushueva T., Anderson W.F., Egli M.
Protein Sci. 9:2557-2566(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS), RNA-BINDING.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		U18997 Genomic DNA. Translation: AAA58079.1. Frameshift.
U00096 Genomic DNA. Translation: AAC76307.1.
AP009048 Genomic DNA. Translation: BAE78009.1.
PIRE65120.
RefSeqNP_417741.1. NC_000913.2.
YP_492150.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1HRUX-ray2.00A/B1-188[»]
ProteinModelPortalP45748.
SMRP45748. Positions 3-188.
ModBaseSearch...

Protein-protein interaction databases

DIPDIP-12916N.
IntActP45748. 12 interactions.
MINTMINT-1230775.
STRING511145.b3282.

Proteomic databases

PaxDbP45748.
PRIDEP45748.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC76307; AAC76307; b3282.
BAE78009; BAE78009; BAE78009.
GeneID12933460.
947783.
KEGGecj:Y75_p3894.
eco:b3282.
PATRIC32121998. VBIEscCol129921_3376.

Organism-specific databases

EchoBASEEB2689.
EcoGeneEG12840. rimN.

Phylogenomic databases

eggNOGCOG0009.
HOGENOMHOG000076163.
KOK07566.
OMAFGLGCNP.
ProtClustDBPRK10634.

Enzyme and pathway databases

BioCycEcoCyc:G7698-MONOMER.
ECOL316407:JW3243-MONOMER.

Gene expression databases

GenevestigatorP45748.

Family and domain databases

Gene3D3.90.870.10. 1 hit.
HAMAPMF_01852. RimN.
InterProIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR023535. tRNA-t6A_RimN_(YrdC).
IPR006070. YrdC-like_dom.
[Graphical view]
PfamPF01300. Sua5_yciO_yrdC. 1 hit.
[Graphical view]
SUPFAMSSF55821. DHBP_synth_RibB-like_a/b_dom. 1 hit.
PROSITEPS51163. YRDC. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP45748.

Entry information

Entry nameRIMN_ECOLI
AccessionPrimary (citable) accession number: P45748
Secondary accession number(s): Q2M6U7
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: July 15, 1998
Last modified: May 1, 2013
This is version 106 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

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

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents