RegulonDB RegulonDB 10.9: Gene Form
   

rtcA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

malT rtcB rtcA rtcAp2 rtcAp2 rtcAp6 rtcAp6 rtcAp1 rtcAp1 TSS_4026 TSS_4026 TSS_4025 TSS_4025 TSS_4024 TSS_4024 TSS_4023 TSS_4023 TSS_4022 TSS_4022 TSS_4021 TSS_4021 TSS_4020 TSS_4020 TSS_4019 TSS_4019 TSS_4018 (cluster) TSS_4018 (cluster) TSS_4017 TSS_4017

Gene      
Name: rtcA    Texpresso search in the literature
Synonym(s): ECK3406, G7750, b3419, b3420, b4475, yhgJ, yhgK
Genome position(nucleotides): 3555833 <-- 3556849 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
59.69
External database links:  
ASAP:
ABE-0174104
ECHOBASE:
EB2773
ECOLIHUB:
rtcA
OU-MICROARRAY:
b3420
STRING:
511145.b4475
COLOMBOS: rtcA


Product      
Name: RNA 3'-terminal phosphate cyclase
Synonym(s): RtcA, YhgJ, YhgK
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 35.903
Isoelectric point: 7.263
Motif(s):
 
Type Positions Sequence
287 -> 287 Q
130 -> 130 P
103 -> 103 Q
283 -> 287 YLADQ
128 -> 128 S

 

Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.3 - RNA modification
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0003824 - catalytic activity
GO:0016874 - ligase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0003963 - RNA-3'-phosphate cyclase activity
biological_process GO:0006396 - RNA processing
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
G7750-MONOMER
ECOLIWIKI:
b4475
INTERPRO:
IPR000228
INTERPRO:
IPR013791
INTERPRO:
IPR036553
INTERPRO:
IPR023797
INTERPRO:
IPR037136
INTERPRO:
IPR013792
INTERPRO:
IPR017770
INTERPRO:
IPR020719
MODBASE:
P46849
PANTHER:
PTHR11096
PANTHER:
PTHR11096:SF0
PDB:
3KGD
PDB:
1QMI
PDB:
1QMH
PDB:
3TUX
PDB:
3TV1
PDB:
3TUT
PDB:
3TW3
PFAM:
PF05189
PFAM:
PF01137
PRIDE:
P46849
PROSITE:
PS01287
REFSEQ:
YP_026219
SMR:
P46849
UNIPROT:
P46849


Operon      
Name: rtcBA         
Operon arrangement:
Transcription unit        Promoter
rtcBA


Transcriptional Regulation      
Display Regulation             
Activated by: RtcR, IHF


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_4017 3553091 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4018 (cluster) 3553664 forward For this promoter, there
Read more >
[RS-EPT-CBR] [1]
  promoter TSS_4019 3553757 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4020 3553836 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4021 3553843 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4022 3554481 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4023 3554746 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4024 3555139 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4025 3555545 forward nd [RS-EPT-CBR] [1]
  promoter TSS_4026 3555555 forward nd [RS-EPT-CBR] [1]
  promoter rtcAp1 3556880 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter rtcAp6 3556948 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter rtcAp2 3557002 reverse Similarity to the consensus
Read more >
[ICWHO] [2]


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] 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.

 [2] 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


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