RegulonDB RegulonDB 10.10: Gene Form
   

rplF gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rplF rpsH rplR TSS_3751 TSS_3751 TSS_3750 TSS_3750 TSS_3749 (cluster) TSS_3749 (cluster) TSS_3748 TSS_3748 TSS_3747 TSS_3747 TSS_3746 TSS_3746 TSS_3745 TSS_3745 TSS_3744 (cluster) TSS_3744 (cluster) TSS_3743 (cluster) TSS_3743 (cluster) TSS_3742 (cluster) TSS_3742 (cluster) TSS_3741 TSS_3741 TSS_3740 TSS_3740 TSS_3739 TSS_3739 TSS_3738 TSS_3738 TSS_3737 TSS_3737 TSS_3736 TSS_3736 TSS_3735 TSS_3735 TSS_3734 TSS_3734 TSS_3733 (cluster) TSS_3733 (cluster) TSS_3732 TSS_3732

Gene      
Name: rplF    Texpresso search in the literature
Synonym(s): ECK3292, EG10869, b3305
Genome position(nucleotides): 3445607 <-- 3446140 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.06
External database links:  
ASAP:
 ABE-0010827
CGSC:
 258
ECHOBASE:
 EB0862
ECOLIHUB:
 rplF
OU-MICROARRAY:
 b3305
STRING:
 511145.b3305
COLOMBOS: rplF


Product      
Name: 50S ribosomal subunit protein L6
Synonym(s): RplF
Sequence: Get amino acid sequence Fasta Format
Cellular location: ribosome,cytosol
Molecular weight: 18.904
Isoelectric point: 10.306
Motif(s):
 
Type Positions Sequence
11 -> 82 VPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVTEG
90 -> 164 VGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKGVRY
158 -> 177 KGKGVRYADEVVRTKEAKKK
2 -> 177 SRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVTEGFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKGVRYADEVVRTKEAKKK
82 -> 82 G

 
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:0003723 - RNA binding
GO:0019843 - rRNA binding
GO:0070180 - large ribosomal subunit rRNA binding
biological_process GO:0006412 - translation
GO:0000027 - ribosomal large subunit assembly
GO:0046677 - response to antibiotic
GO:0002181 - cytoplasmic translation
Note(s): Note(s): ...[more].
Reference(s): [1] Chen R., et al., 1977
[2] Isono K., et al., 1976
[3] Metaxas A., et al., 2002
[4] Shigeno Y., et al., 2016
[5] Steinhauser KG., et al., 1983
[6] Steinhauser KG., et al., 1982
[7] Stoffler-Meilicke M., et al., 1983
External database links:  
DIP:
 DIP-35860N
ECOCYC:
 EG10869-MONOMER
ECOLIWIKI:
 b3305
INTERPRO:
 IPR036789
INTERPRO:
 IPR020040
INTERPRO:
 IPR002358
INTERPRO:
 IPR000702
INTERPRO:
 IPR019906
PANTHER:
 PTHR11655
PANTHER:
 PTHR11655:SF14
PDB:
 1EG0
PDB:
 1ML5
PDB:
 2J28
PDB:
 2RDO
PDB:
 3BBX
PDB:
 3J5L
PDB:
 3J7Z
PDB:
 3J8G
PDB:
 3J9Y
PDB:
 3J9Z
PDB:
 3JA1
PDB:
 3JBU
PDB:
 3JBV
PDB:
 3JCD
PDB:
 3JCE
PDB:
 3JCJ
PDB:
 3JCN
PDB:
 487D
PDB:
 4CSU
PDB:
 4U1U
PDB:
 4U1V
PDB:
 4U20
PDB:
 4U24
PDB:
 4U25
PDB:
 4U26
PDB:
 4U27
PDB:
 4UY8
PDB:
 4V47
PDB:
 4V48
PDB:
 4V4H
PDB:
 4V4Q
PDB:
 4V4V
PDB:
 4V4W
PDB:
 4V50
PDB:
 4V52
PDB:
 4V53
PDB:
 4V54
PDB:
 4V55
PDB:
 4V56
PDB:
 4V57
PDB:
 4V5B
PDB:
 4V5H
PDB:
 4V5Y
PDB:
 4V64
PDB:
 4V65
PDB:
 4V66
PDB:
 4V69
PDB:
 4V6C
PDB:
 4V6D
PDB:
 4V6E
PDB:
 4V6K
PDB:
 4V6L
PDB:
 4V6M
PDB:
 4V6N
PDB:
 4V6O
PDB:
 4V6P
PDB:
 4V6Q
PDB:
 4V6R
PDB:
 4V6S
PDB:
 4V6T
PDB:
 4V6V
PDB:
 4V6Y
PDB:
 4V6Z
PDB:
 4V70
PDB:
 4V71
PDB:
 4V72
PDB:
 4V73
PDB:
 4V74
PDB:
 4V75
PDB:
 4V76
PDB:
 4V77
PDB:
 4V78
PDB:
 4V79
PDB:
 4V7A
PDB:
 4V7B
PDB:
 4V7C
PDB:
 4V7D
PDB:
 4V7I
PDB:
 4V7S
PDB:
 4V7T
PDB:
 4V7U
PDB:
 4V7V
PDB:
 4V85
PDB:
 4V89
PDB:
 4V9C
PDB:
 4V9D
PDB:
 4V9O
PDB:
 4V9P
PDB:
 4WF1
PDB:
 4WOI
PDB:
 4WWW
PDB:
 4YBB
PDB:
 5ADY
PDB:
 5AFI
PDB:
 5AKA
PDB:
 5GAD
PDB:
 5GAE
PDB:
 5GAF
PDB:
 5GAG
PDB:
 5GAH
PDB:
 5H5U
PDB:
 5IQR
PDB:
 5IT8
PDB:
 5J5B
PDB:
 5J7L
PDB:
 5J88
PDB:
 5J8A
PDB:
 5J91
PDB:
 5JC9
PDB:
 5JTE
PDB:
 5JU8
PDB:
 5KCR
PDB:
 5KCS
PDB:
 5KPS
PDB:
 5KPV
PDB:
 5KPW
PDB:
 5KPX
PDB:
 5L3P
PDB:
 5LZA
PDB:
 5LZB
PDB:
 5LZC
PDB:
 5LZD
PDB:
 5LZE
PDB:
 5LZF
PDB:
 5MDV
PDB:
 5MDW
PDB:
 5MDY
PDB:
 5MDZ
PDB:
 5MGP
PDB:
 5NCO
PDB:
 5NP6
PDB:
 5NWY
PDB:
 5O2R
PDB:
 5U4I
PDB:
 5U9F
PDB:
 5U9G
PDB:
 5UYK
PDB:
 5UYL
PDB:
 5UYM
PDB:
 5UYN
PDB:
 5UYP
PDB:
 5UYQ
PDB:
 5WDT
PDB:
 5WE4
PDB:
 5WE6
PDB:
 5WFK
PDB:
 6BU8
PDB:
 6BY1
PDB:
 6C4I
PDB:
 6ENF
PDB:
 6ENJ
PDB:
 6ENU
PDB:
 6GBZ
PDB:
 6GC0
PDB:
 6GC4
PDB:
 6GC6
PDB:
 6GC8
PDB:
 6GWT
PDB:
 6GXM
PDB:
 6GXN
PDB:
 6GXO
PDB:
 6GXP
PDB:
 6H4N
PDB:
 6H58
PDB:
 6HRM
PDB:
 6I0Y
PDB:
 6I7V
PDB:
 6O9J
PDB:
 6O9K
PDB:
 6OFX
PDB:
 6OG7
PDB:
 6ORE
PDB:
 6ORL
PDB:
 6OST
PDB:
 6OT3
PDB:
 6OUO
PDB:
 6Q97
PDB:
 6Q98
PDB:
 6Q9A
PDB:
 6QUL
PDB:
 6S0K
PDB:
 6SZS
PDB:
 6TBV
PDB:
 6TC3
PFAM:
 PF00347
PRIDE:
 P0AG55
PRINTS:
 PR00059
PRODB:
 PRO_000023814
PROSITE:
 PS00525
REFSEQ:
 NP_417764
SMR:
 P0AG55
SWISSMODEL:
 P0AG55
UNIPROT:
 P0AG55


Operon      
Name: rplNXE-rpsNH-rplFR-rpsE-rpmD-rplO-secY-rpmJ         
Operon arrangement:
Transcription unit        Promoter
rplNXE-rpsNH-rplFR-rpsE-rpmD-rplO-secY-rpmJ


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_3732 3445295 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3733 (cluster) 3445304 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3734 3445418 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3735 3445426 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3736 3445428 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3737 3445466 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3738 3445546 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3739 3445611 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3740 3445620 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3741 3445623 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3742 (cluster) 3445658 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3743 (cluster) 3445685 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3744 (cluster) 3445691 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3745 3445699 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3746 3445701 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3747 3445710 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3748 3445872 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3749 (cluster) 3446058 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3750 3446394 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_3751 3446402 reverse nd [RS-EPT-CBR] [8]


Evidence    

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


Reference(s)    

 [1] Chen R., Arfsten U., Chen-Schmeisser U., 1977, The primary structure of protein L6 from the aminoacyl-tRNA binding site of the Escherichia coli ribosome., Hoppe Seylers Z Physiol Chem 358(4):531-5

 [2] Isono K., Krauss J., Hirota Y., 1976, Isolation and characterization of temperature-sensitive mutants of Escherichia coli with altered ribosomal proteins., Mol Gen Genet 149(3):297-302

 [3] Metaxas A., Tzartos S., Liakopoulou-Kyriakide M., 2002, The production of anti-hexapeptide antibodies which recognize the S7, L6 and L13 ribosomal proteins of Escherichia coli., J Pept Sci 8(3):118-24

 [4] Shigeno Y., Uchiumi T., Nomura T., 2016, Involvement of ribosomal protein L6 in assembly of functional 50S ribosomal subunit in Escherichia coli cells., Biochem Biophys Res Commun 473(1):237-42

 [5] Steinhauser KG., Woolley P., Dijk J., Epe B., 1983, Distance measurement by energy transfer. Ribosomal proteins L6, L10 and L11 of Escherichia coli., Eur J Biochem 137(1-2):337-45

 [6] Steinhauser KG., Woolley P., Epe B., Dijk J., 1982, Structure of ribosomal protein L6 from Escherichia coli. A fluorescence study., Eur J Biochem 127(3):587-95

 [7] Stoffler-Meilicke M., Epe B., Steinhauser KG., Woolley P., Stoffler G., 1983, Immunoelectron microscopy of ribosomes carrying a fluorescence label in a defined position. Location of proteins S17 and L6 in the ribosome of Escherichia coli., FEBS Lett 163(1):94-8

 [8] 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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