RegulonDB RegulonDB 11.1: Gene Form
   

kdsB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ycaQ ycbJ kdsB ycaR elyC terminator anti-terminator anti-anti-terminator TSS_1193 TSS_1193 TSS_1192 TSS_1192 ycbJp ycbJp TSS_1191 (cluster) TSS_1191 (cluster) ycaRp ycaRp TSS_1190 TSS_1190

Gene      
Name: kdsB    Texpresso search in the literature
Synonym(s): ECK0909, EG10519, b0918
Genome position(nucleotides): 970852 --> 971598
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.74
External database links:  
ASAP:
 ABE-0003122
CGSC:
 18202
ECHOBASE:
 EB0514
ECOLIHUB:
 kdsB
OU-MICROARRAY:
 b0918
STRING:
 511145.b0918
COLOMBOS: kdsB


Shine dalgarno      
Sequence: actgctgatgAGAGTAaatcATG


Product      
Name: 3-deoxy-manno-octulosonate cytidylyltransferase
Synonym(s): KdsB
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 27.614
Isoelectric point: 4.927
Motif(s):
 
Type Positions Sequence Comment
2 -> 248 SFVVIIPARYASTRLPGKPLVDINGKPMIVHVLERARESGAERIIVATDHEDVARAVEAAGGEVCMTRADHQSGTERLAEVVEKCAFSDDTVIVNVQGDEPMIPATIIRQVADNLAQRQVGMATLAVPIHNAEEAFNPNAVKVVLDAEGYALYFSRATIPWDRDRFAEGLETVGDNFLRHLGIYGYRAGFIRRYVNWQPSPLEHIEMLEQLRVLWYGEKIHVAVAQEVPGTGVDTPEDLERVRAEMR UniProt: 3-deoxy-manno-octulosonate cytidylyltransferase.
4 -> 221 VVIIPARYASTRLPGKPLVDINGKPMIVHVLERARESGAERIIVATDHEDVARAVEAAGGEVCMTRADHQSGTERLAEVVEKCAFSDDTVIVNVQGDEPMIPATIIRQVADNLAQRQVGMATLAVPIHNAEEAFNPNAVKVVLDAEGYALYFSRATIPWDRDRFAEGLETVGDNFLRHLGIYGYRAGFIRRYVNWQPSPLEHIEMLEQLRVLWYGEKI

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents) --> 1.6.3 - lipopolysaccharide --> 1.6.3.2 - core region
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0016779 - nucleotidyltransferase activity
GO:0005515 - protein binding
GO:0016740 - transferase activity
GO:0008690 - 3-deoxy-manno-octulosonate cytidylyltransferase activity
GO:0000287 - magnesium ion binding
biological_process GO:0009103 - lipopolysaccharide biosynthetic process
GO:0019294 - keto-3-deoxy-D-manno-octulosonic acid biosynthetic process
GO:0033468 - CMP-keto-3-deoxy-D-manno-octulosonic acid biosynthetic process
Note(s): Note(s): ...[more].
Reference(s): [1] Yi L., et al., 2011
External database links:  
ALPHAFOLD:
 P04951
DIP:
 DIP-10066N
ECOCYC:
 CPM-KDOSYNTH-MONOMER
ECOLIWIKI:
 b0918
INTERPRO:
 IPR004528
INTERPRO:
 IPR003329
INTERPRO:
 IPR029044
MODBASE:
 P04951
PDB:
 3K8E
PDB:
 1VH1
PDB:
 3K8D
PFAM:
 PF02348
PRIDE:
 P04951
PRODB:
 PRO_000023055
REFSEQ:
 NP_415438
SMR:
 P04951
UNIPROT:
 P04951


Operon      
Name: ycaR-kdsB         
Operon arrangement:
Transcription unit        Promoter
ycaR-kdsB


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_1190 970640 forward nd [RS-EPT-CBR] [2]
  promoter TSS_1191 (cluster) 970643 forward nd [RS-EPT-CBR] [2]
  promoter TSS_1192 971727 forward nd [RS-EPT-CBR] [2]
  promoter TSS_1193 971733 forward nd [RS-EPT-CBR] [2]


Evidence    

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


Reference(s)    

 [1] Yi L., Velasquez MS., Holler TP., Woodard RW., 2011, A simple assay for 3-deoxy-d-manno-octulosonate cytidylyltransferase and its use as a pathway screen., Anal Biochem 416(2):152-8

 [2] 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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