RegulonDB

Gene
Name:	rimM
Synonym(s):	ECK2605, EG11153, b2608, yfjA
Genome position(nucleotides):	2745370 <-- 2745918 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	49.0
External database links:

ASAP:	ABE-0008579
ECHOBASE:	EB1142
OU-MICROARRAY:	b2608
PortEco:	rimM
STRING:	511145.b2608
COLOMBOS:	rimM

Product

Name:

ribosome maturation factor RimM

Synonym(s):

21K, RimM, YfjA

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol,ribosome

Molecular weight:

20.605

Isoelectric point:

4.38

Motif(s):

Type	Positions	Sequence
	103 -> 182	EGDYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVLVIKANLKDAFGIKERLVPFLDGQVIKKVDLTTRSIEVDWDPGF
	16 -> 96	LGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNCEIVVDSS
	106 -> 107	YY
	104 -> 177	GDYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVLVIKANLKDAFGIKERLVPFLDGQVIKKVDLTTRSIEVD

Classification:

Multifun Terms (GenProtEC)
		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:0005737 - cytoplasm GO:0005829 - cytosol GO:0005840 - ribosome
	molecular_function	GO:0005515 - protein binding GO:0043022 - ribosome binding GO:0003723 - RNA binding GO:0019843 - rRNA binding
	biological_process	GO:0042254 - ribosome biogenesis GO:0006364 - rRNA processing GO:0042274 - ribosomal small subunit biogenesis GO:0030490 - maturation of SSU-rRNA GO:0000028 - ribosomal small subunit assembly

Note(s):

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

Evidence:

[IE] Inferred from experiment

Reference(s):

[1] Bylund GO., et al., 1998
[2] Suzuki S., et al., 2007

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

PFAM:

PFAM:

PRIDE:

PRODB:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

rpsP-rimM-trmD-rplS

Operon arrangement:

Transcription unit	Promoter
rpsP-rimM-trmD-rplS	rpsPp

Transcriptional Regulation
	Display Regulation
Repressed by:	FNR

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

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	rplSp1	2744642	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 0.06. P-value: 1.291e-6 Read more >	[ICWHO]	[3]
promoter	TSS_2948	2744644	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2949	2744647	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2950	2744657	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2951	2744665	reverse	nd	[RS-EPT-CBR]	[4]

Evidence
[ICWHO] Inferred computationally without human oversight
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Bylund GO., Wipemo LC., Lundberg LA., Wikstrom PM., 1998, RimM and RbfA are essential for efficient processing of 16S rRNA in Escherichia coli., J Bacteriol 180(1):73-82
[2] Suzuki S., Tatsuguchi A., Matsumoto E., Kawazoe M., Kaminishi T., Shirouzu M., Muto Y., Takemoto C., Yokoyama S., 2007, Structural characterization of the ribosome maturation protein, RimM., J Bacteriol 189(17):6397-406
[3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78
[4] 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.