RegulonDB

RegulonDB RegulonDB 10.10: Gene Form

rplI gene in Escherichia coli K-12 genome

Gene local context to scale (view description)

Gene
Name:	rplI
Synonym(s):	ECK4199, EG10870, b4203
Genome position(nucleotides):	4426108 --> 4426557 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	49.78
External database links:

ASAP:	ABE-0013746
CGSC:	257
ECHOBASE:	EB0863
ECOLIHUB:	rplI
OU-MICROARRAY:	b4203
STRING:	511145.b4203
COLOMBOS:	rplI

Product

Name:

50S ribosomal subunit protein L9

Synonym(s):

RplI

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

ribosome,cytosol

Molecular weight:

15.769

Isoelectric point:

6.547

Motif(s):

Type	Positions	Sequence
	125 -> 128	TGEH
	1 -> 45	MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIE
	106 -> 106	A
	136 -> 136	S
	64 -> 148	AANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAAGVEVAKSEVRLPNGVLRTTGEHEVSFQVHSEVFAKVIVNVVA

Classification:

Multifun Terms (GenProtEC)
		2 - information transfer --> 2.3 - protein related --> 2.3.2 - translation
		2 - information transfer --> 2.3 - protein related --> 2.3.8 - ribosomal proteins
		6 - cell structure --> 6.6 - ribosomes
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol GO:0005840 - ribosome GO:0022625 - cytosolic large ribosomal subunit
	molecular_function	GO:0003735 - structural constituent of ribosome GO:0005515 - protein binding GO:0003723 - RNA binding GO:0019843 - rRNA binding GO:0070180 - large ribosomal subunit rRNA binding
	biological_process	GO:0006412 - translation

Note(s):

Note(s): ...[more].

Reference(s):

[1] Abdurashidova GG., et al., 1985
[2] Al-Majdoub ZM., et al., 2013
[3] Branlant C., et al., 1976
[4] Branlant C., et al., 1977
[5] Dunkle JA., et al., 2011
[6] Gordiyenko Y., et al., 2008
[7] Hwang J., et al., 2006
[8] Isono K., et al., 1978
[9] Kakegawa T., et al., 1986
[10] Kamp RM., et al., 1983
[11] Kitakawa M., et al., 1980
[12] Kuroda A., et al., 2001
[13] Morrison CA., et al., 1977
[14] Moureau P., et al., 1983
[15] Nag B., et al., 1991
[16] Osswald M., et al., 1990
[17] Robertson WR., et al., 1977
[18] Sato S., et al., 2001
[19] Schnier J., et al., 1986
[20] Schuwirth BS., et al., 2005
[21] Seidman JS., et al., 2011
[22] Stoffler-Meilicke M., et al., 1983
[23] Subramanian AR., et al., 1977
[24] Traut RR., et al., 1983
[25] Vladimirov SN., et al., 1985

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Operon

Name:

rpsF-priB-rpsR-rplI

Operon arrangement:

Transcription unit	Promoter
rpsF-priB-rpsR-rplI	rpsFp

Transcriptional Regulation
	Display Regulation
Activated by:	CRP

Elements in the selected gene context region unrelated to any object in RegulonDB

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_5061 (cluster)	4425912		forward	nd	[RS-EPT-CBR]	[26]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Abdurashidova GG., Tsvetkova EA., Chernyi AA., Kaminir LB., Budowsky EI., 1985, Intersubunit RNA-protein contacts in pre- and post-translocated E. coli ribosome., FEBS Lett 185(2):291-4
[2] Al-Majdoub ZM., Owoseni A., Gaskell SJ., Barber J., 2013, Effects of gentamicin on the proteomes of aerobic and oxygen-limited Escherichia coli., J Med Chem 56(7):2904-10
[3] Branlant C., Krol A., Sriwidada J., Brimacombe R., 1976, RNA sequences associated with proteins L1, L9, and L5, L18, L25, in ribonucleoprotein fragments isolated from the 50-S subunit of Escherichia coli ribosomes., Eur J Biochem 70(2):483-92
[4] Branlant C., Widada JS., Krol A., Ebel JP., 1977, Studies on the primary structure of the ribosomal 23S RNA of Escherichia coli: II. A characterisation and an alignment of 24 sections spanning the entire molecule and its application to the localisation of specific fragments., Nucleic Acids Res 4(12):4323-45
[5] Dunkle JA., Wang L., Feldman MB., Pulk A., Chen VB., Kapral GJ., Noeske J., Richardson JS., Blanchard SC., Cate JH., 2011, Structures of the bacterial ribosome in classical and hybrid states of tRNA binding., Science 332(6032):981-4
[6] Gordiyenko Y., Deroo S., Zhou M., Videler H., Robinson CV., 2008, Acetylation of L12 increases interactions in the Escherichia coli ribosomal stalk complex., J Mol Biol 380(2):404-14
[7] Hwang J., Inouye M., 2006, The tandem GTPase, Der, is essential for the biogenesis of 50S ribosomal subunits in Escherichia coli., Mol Microbiol 61:1660-1672
[8] Isono K., Kitakawa M., 1978, Cluster of ribosomal protein genes in Escherichia coli containing genes for proteins S6, S18, and L9., Proc Natl Acad Sci U S A 75(12):6163-7
[9] Kakegawa T., Sato E., Hirose S., Igarashi K., 1986, Polyamine binding sites on Escherichia coli ribosomes., Arch Biochem Biophys 251(2):413-20
[10] Kamp RM., Yao ZJ., Wittmann-Liebold B., 1983, Direct micro-sequence analysis of peptides from Escherichia coli ribosomal proteins S11, L9 and L29 after separation by reversed phase chromatography., Hoppe Seylers Z Physiol Chem 364(2):141-55
[11] Kitakawa M., Blumenthal L., Isono K., 1980, Isolation and characterization of specialized transducing lambda phages carrying ribosomal protein genes of Escherichia coli., Mol Gen Genet 180(2):343-9
[12] Kuroda A., Nomura K., Ohtomo R., Kato J., Ikeda T., Takiguchi N., Ohtake H., Kornberg A., 2001, Role of inorganic polyphosphate in promoting ribosomal protein degradation by the Lon protease in E. coli., Science 293(5530):705-8
[13] Morrison CA., Tischendorf G., Stoffler G., Garrett RA., 1977, Accessibility of proteins in 50S ribosomal subunits of Escherichia coli to antibodies: an ultracentrifugation study., Mol Gen Genet 151(3):245-52
[14] Moureau P., Di Giambattista M., Cocito C., 1983, The lasting ribosome alteration produced by virginiamycin M disappears upon removal of certain ribosomal proteins., Biochim Biophys Acta 739(2):164-72
[15] Nag B., Akella SS., Cann PA., Tewari DS., Glitz DG., Traut RR., 1991, Monoclonal antibodies to Escherichia coli ribosomal proteins L9 and L10. Effects on ribosome function and localization of L9 on the surface of the 50 S ribosomal subunit., J Biol Chem 266(33):22129-35
[16] Osswald M., Greuer B., Brimacombe R., 1990, Localization of a series of RNA-protein cross-link sites in the 23S and 5S ribosomal RNA from Escherichia coli, induced by treatment of 50S subunits with three different bifunctional reagents., Nucleic Acids Res 18(23):6755-60
[17] Robertson WR., Dowsett SJ., Hardy SJ., 1977, Exchange of ribosomal proteins among the ribosomes of Escherichia coli., Mol Gen Genet 157(2):205-14
[18] Sato S., Xiang S., Raleigh DP., 2001, On the relationship between protein stability and folding kinetics: a comparative study of the N-terminal domains of RNase HI, E. coli and Bacillus stearothermophilus L9., J Mol Biol 312(3):569-77
[19] Schnier J., Kitakawa M., Isono K., 1986, The nucleotide sequence of an Escherichia coli chromosomal region containing the genes for ribosomal proteins S6, S18, L9 and an open reading frame., Mol Gen Genet 204(1):126-32
[20] Schuwirth BS., Borovinskaya MA., Hau CW., Zhang W., Vila-Sanjurjo A., Holton JM., Cate JH., 2005, Structures of the bacterial ribosome at 3.5 A resolution., Science 310(5749):827-34
[21] Seidman JS., Janssen BD., Hayes CS., 2011, Alternative fates of paused ribosomes during translation termination., J Biol Chem 286(36):31105-12
[22] Stoffler-Meilicke M., Noah M., Stoffler G., 1983, Location of eight ribosomal proteins on the surface of the 50S subunit from Escherichia coli., Proc Natl Acad Sci U S A 80(22):6780-4
[23] Subramanian AR., van Duin J., 1977, Exchange of individual ribosomal proteins between ribosomes as studied by heavy isotope-transfer experiments., Mol Gen Genet 158(1):1-9
[24] Traut RR., Lambert JM., Kenny JW., 1983, Ribosomal protein L7/L12 cross-links to proteins in separate regions of the 50 S ribosomal subunit of Escherichia coli., J Biol Chem 258(23):14592-8
[25] Vladimirov SN., Graifer DM., Karpova GG., Semenkov YuP., Makhno VI., Kirillov SV., 1985, The effect of GTP hydrolysis and transpeptidation on the arrangement of aminoacyl-tRNA at the A-site of Escherichia coli 70 S ribosomes., FEBS Lett 181(2):367-72
[26] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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