RegulonDB

Gene
Name:	yggL
Synonym(s):	ECK2954, EG12443, b2959
Genome position(nucleotides):	3101807 <-- 3102133 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	48.62
External database links:

ASAP:	ABE-0009712
ECHOBASE:	EB2337
ECOLIHUB:	yggL
OU-MICROARRAY:	b2959
STRING:	511145.b2959
COLOMBOS:	yggL

Product

Name:

putative ribosome assembly factor YggL

Synonym(s):

DUF469 domain-containing protein YggL, YggL

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

12.881

Isoelectric point:

4.596

Motif(s):

Type	Positions	Sequence
	73 -> 73	E
	7 -> 107	RRLRKKMHIDEFQELGFSVAWRFPEGTSEEQIDKTVDDFINEVIEPNKLAFDGSGYLAWEGLICMQEIGKCTEEHQAIVRKWLEERKLDEVRTSELFDVWW

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		6 - cell structure --> 6.6 - ribosomes
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0043022 - ribosome binding GO:0043023 - ribosomal large subunit binding
	biological_process	GO:0042255 - ribosome assembly

Note(s):

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

Reference(s):

[1] Chen SS., et al., 2013
[2] Hor J., et al., 2020

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PANTHER:

PFAM:

PRIDE:

REFSEQ:

UNIPROT:

Operon

Name:

trmB-yggL

Operon arrangement:

Transcription unit	Promoter
trmB-yggL

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	TSS_3283	3101055	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3284	3102157	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3285 (cluster)	3102193	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3286 (cluster)	3102200	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3287 (cluster)	3102236	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3288	3102247	reverse	nd	[RS-EPT-CBR]	[3]
promoter	yggLp2	3102250	reverse	nd	[ICWHO], [RS-EPT-CBR]	[3], [4]
promoter	yggLp3	3102254	reverse	nd	[ICWHO]	[4]
promoter	TSS_3290	3102279	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3291	3102291	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3292	3102390	reverse	nd	[RS-EPT-CBR]	[3]
promoter	TSS_3294	3104042	forward	nd	[RS-EPT-CBR]	[3]

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

Reference(s)
[1] Chen SS., Williamson JR., 2013, Characterization of the ribosome biogenesis landscape in E. coli using quantitative mass spectrometry., J Mol Biol 425(4):767-79
[2] Hor J., Di Giorgio S., Gerovac M., Venturini E., Forstner KU., Vogel J., 2020, Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichia coli., Nucleic Acids Res 48(16):9301-9319
[3] 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.
[4] 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