RegulonDB RegulonDB 10.8: Gene Form
   

ligA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ligA zipA zipA5\' ypeB yfeH anti-anti-terminator anti-terminator terminator TSS_2689 TSS_2689 ligAp ligAp

Gene      
Name: ligA    Texpresso search in the literature
Synonym(s): ECK2406, EG10534, b2411, dnaL, lig, lop, pdeC
Genome position(nucleotides): 2528161 <-- 2530176 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 54.41
External database links:  
ASAP:
 ABE-0007938
CGSC:
 557
ECHOBASE:
 EB0529
OU-MICROARRAY:
 b2411
PortEco:
 ligA
STRING:
 511145.b2411
COLOMBOS: ligA


Product      
Name: DNA ligase
Synonym(s): DnaL, Lig, LigA, Lop, PdeC
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 73.606
Isoelectric point: 5.245
Motif(s):
 
Type Positions Sequence
172 -> 172 G
383 -> 384 VI
455 -> 455 G
519 -> 524 EVGEAT
69 -> 69 A

 
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.1 - DNA related --> 2.1.4 - DNA repair
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003677 - DNA binding
GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0016874 - ligase activity
GO:0003911 - DNA ligase (NAD+) activity
GO:0070403 - NAD+ binding
biological_process GO:0006259 - DNA metabolic process
GO:0006260 - DNA replication
GO:0006266 - DNA ligation
GO:0006281 - DNA repair
GO:0006974 - cellular response to DNA damage stimulus
GO:0006288 - base-excision repair, DNA ligation
Note(s): Note(s): ...[more].
Reference(s): [1] Cronan GE., et al., 2019
[2] Gellert M., et al., 1968
[3] Olivera BM., et al., 1968
[4] Unciuleac MC., et al., 2017
External database links:  
DIP:
 DIP-10098N
ECOCYC:
 EG10534-MONOMER
ECOLIWIKI:
 b2411
INTERPRO:
 IPR004150
INTERPRO:
 IPR041663
INTERPRO:
 IPR036420
INTERPRO:
 IPR033136
INTERPRO:
 IPR018239
INTERPRO:
 IPR013840
INTERPRO:
 IPR013839
INTERPRO:
 IPR012340
INTERPRO:
 IPR010994
INTERPRO:
 IPR004149
INTERPRO:
 IPR003583
INTERPRO:
 IPR001679
INTERPRO:
 IPR001357
MINT:
 MINT-204717
MODBASE:
 P15042
PANTHER:
 PTHR11107:SF5
PDB:
 2OWO
PDB:
 4GLX
PDB:
 5TT5
PFAM:
 PF03119
PFAM:
 PF12826
PFAM:
 PF01653
PFAM:
 PF03120
PFAM:
 PF00533
PRIDE:
 P15042
PRODB:
 PRO_000023089
PROSITE:
 PS01056
PROSITE:
 PS50172
PROSITE:
 PS01055
REFSEQ:
 NP_416906
SMART:
 SM00532
SMART:
 SM00292
SMART:
 SM00278
SMR:
 P15042
SWISSMODEL:
 P15042
UNIPROT:
 P15042


Operon      
Name: ligA-ypeB         
Operon arrangement:
Transcription unit        Promoter
ligA-ypeB


RNA cis-regulatory element    
Attenuation: Transcriptional


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_2689 2530551 reverse nd [RS-EPT-CBR] [5]


Evidence    

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


Reference(s)    

 [1] Cronan GE., Kouzminova EA., Kuzminov A., 2019, Near-continuously synthesized leading strands in Escherichia coli are broken by ribonucleotide excision., Proc Natl Acad Sci U S A 116(4):1251-1260

 [2] Gellert M., Little JW., Oshinsky CK., Zimmerman SB., 1968, Joining of DNA strands by DNA ligase of E. coli., Cold Spring Harb Symp Quant Biol 33:21-6

 [3] Olivera BM., Hall ZW., Anraku Y., Chien JR., Lehman IR., 1968, On the mechanism of the polynucleotide joining reaction., Cold Spring Harb Symp Quant Biol 33:27-34

 [4] Unciuleac MC., Goldgur Y., Shuman S., 2017, Two-metal versus one-metal mechanisms of lysine adenylylation by ATP-dependent and NAD+ -dependent polynucleotide ligases., Proc Natl Acad Sci U S A 114(10):2592-2597

 [5] 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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