RegulonDB RegulonDB 11.1: Gene Form
   

nagB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

nagE nagA nagB CRP NagC CRP NagC PhoP terminator nagEp nagEp TSS_806 TSS_806 TSS_805 (cluster) TSS_805 (cluster) nagBp nagBp TSS_804 TSS_804 TSS_803 (cluster) TSS_803 (cluster) TSS_802 TSS_802 nagAp nagAp TSS_801 TSS_801 nagCp2 nagCp2 nagCp1 nagCp1 TSS_799 TSS_799 TSS_798 TSS_798

Gene      
Name: nagB    Texpresso search in the literature
Synonym(s): ECK0666, EG10633, b0678, glmD
Genome position(nucleotides): 702811 <-- 703611
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 48.81
External database links:  
ASAP:
 ABE-0002304
CGSC:
 463
ECHOBASE:
 EB0627
ECOLIHUB:
 nagB
OU-MICROARRAY:
 b0678
STRING:
 511145.b0678
COLOMBOS: nagB


Product      
Name: glucosamine-6-phosphate deaminase
Synonym(s): GlmD, NagB
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 29.774
Isoelectric point: 6.912
Motif(s):
 
Type Positions Sequence Comment
9 -> 227 AEQVGKWAARHIVNRINAFKPTADRPFVLGLPTGGTPMTTYKALVEMHKAGQVSFKHVVTFNMDEYVGLPKEHPESYYSFMHRNFFDHVDIPAENINLLNGNAPDIDAECRQYEEKIRSYGKIHLFMGGVGNDGHIAFNEPASSLASRTRIKTLTHDTRVANSRFFDNDVNQVPKYALTVGVGTLLDAEEVMILVLGSQKALALQAAVEGCVNHMWTIS
70 -> 70 N UniProt: In Ref. 2; AAC09324..
91 -> 91 R UniProt: In Ref. 2; AAC09324..
118 -> 118 C UniProt: 50% of wild-type activity, but 2-fold decrease in substrate affinity..
141 -> 141 D UniProt: Large decrease in activity..

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.12 - amino sugar conversions
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0004342 - glucosamine-6-phosphate deaminase activity
GO:0042802 - identical protein binding
biological_process GO:0006043 - glucosamine catabolic process
GO:0008152 - metabolic process
GO:0005975 - carbohydrate metabolic process
GO:0006044 - N-acetylglucosamine metabolic process
GO:0006046 - N-acetylglucosamine catabolic process
GO:0006048 - UDP-N-acetylglucosamine biosynthetic process
GO:0019262 - N-acetylneuraminate catabolic process
Note(s): Note(s): ...[more].
Reference(s): [1] Afroz T., et al., 2014
[2] Baran R., et al., 2013
[3] Rodionova IA., et al., 2018
External database links:  
ALPHAFOLD:
 P0A759
DIP:
 DIP-35992N
ECOCYC:
 GLUCOSAMINE-6-P-DEAMIN-MONOMER
ECOLIWIKI:
 b0678
INTERPRO:
 IPR018321
INTERPRO:
 IPR037171
INTERPRO:
 IPR006148
INTERPRO:
 IPR004547
MODBASE:
 P0A759
PANTHER:
 PTHR11280
PDB:
 2WU1
PDB:
 1FRZ
PDB:
 1FS5
PDB:
 1HOT
PDB:
 1JT9
PDB:
 1FS6
PDB:
 1FSF
PDB:
 1HOR
PDB:
 1CD5
PDB:
 1DEA
PDB:
 1FQO
PFAM:
 PF01182
PRIDE:
 P0A759
PRODB:
 PRO_000023337
PROSITE:
 PS01161
REFSEQ:
 NP_415204
SMR:
 P0A759
UNIPROT:
 P0A759


Operon      
Name: nagBAC-umpH         
Operon arrangement:
Transcription unit        Promoter
umpH
nagC
nagC
nagA
nagBACD


Transcriptional Regulation      
Display Regulation             
Activated by: CRP
Repressed by: CRP, NagC


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_798 701606 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_799 701647 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_801 702710 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_802 703631 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_803 (cluster) 703638 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_804 703655 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_805 (cluster) 703711 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_806 703828 forward nd [RS-EPT-CBR] [4]


Evidence    

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


Reference(s)    

 [1] Afroz T., Biliouris K., Kaznessis Y., Beisel CL., 2014, Bacterial sugar utilization gives rise to distinct single-cell behaviours., Mol Microbiol 93(6):1093-103

 [2] Baran R., Bowen BP., Price MN., Arkin AP., Deutschbauer AM., Northen TR., 2013, Metabolic footprinting of mutant libraries to map metabolite utilization to genotype., ACS Chem Biol 8(1):189-99

 [3] Rodionova IA., Goodacre N., Babu M., Emili A., Uetz P., Saier MH., 2018, The Nitrogen Regulatory PII Protein (GlnB) and N -Acetylglucosamine 6-Phosphate Epimerase (NanE) Allosterically Activate Glucosamine 6-Phosphate Deaminase (NagB) in Escherichia coli., J Bacteriol 200(5)

 [4] 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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