RegulonDB RegulonDB 10.10: Gene Form
   

gudD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

barA gudD gudX gudDp1 gudDp1 TSS_3088 TSS_3088

Gene      
Name: gudD    Texpresso search in the literature
Synonym(s): ECK2781, G7445, b2787, ygcX
Genome position(nucleotides): 2918045 <-- 2919385 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.24
External database links:  
ASAP:
 ABE-0009134
ECHOBASE:
 EB2959
ECOLIHUB:
 gudD
OU-MICROARRAY:
 b2787
STRING:
 511145.b2787
COLOMBOS: gudD


Product      
Name: D-glucarate dehydratase
Synonym(s): GudD, YgcX
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 49.141
Isoelectric point: 5.995
Motif(s):
 
Type Positions Sequence
339 -> 341 HSN
2 -> 446 SSQFTTPVVTEMQVIPVAGHDSMLMNLSGAHAPFFTRNIVIIKDNSGHTGVGEIPGGEKIRKTLEDAIPLVVGKTLGEYKNVLTLVRNTFADRDAGGRGLQTFDLRTTIHVVTGIEAAMLDLLGQHLGVNVASLLGDGQQRSEVEMLGYLFFVGNRKATPLPYQSQPDDSCDWYRLRHEEAMTPDAVVRLAEAAYEKYGFNDFKLKGGVLAGEEEAESIVALAQRFPQARITLDPNGAWSLNEAIKIGKYLKGSLAYAEDPCGAEQGFSGREVMAEFRRATGLPTATNMIATDWRQMGHTLSLQSVDIPLADPHFWTMQGSVRVAQMCHEFGLTWGSHSNNHFDISLAMFTHVAAAAPGKITAIDTHWIWQEGNQRLTKEPFEIKGGLVQVPEKPGLGVEIDMDQVMKAHELYQKHGLGARDDAMGMQYLIPGWTFDNKRPCMVR
207 -> 207 K
235 -> 237 DPN
366 -> 366 D

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization --> 1.1.1 - carbon compounds
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0016829 - lyase activity
GO:0046872 - metal ion binding
GO:0008872 - glucarate dehydratase activity
GO:0000287 - magnesium ion binding
biological_process GO:0019394 - glucarate catabolic process
GO:0042838 - D-glucarate catabolic process
Note(s): Note(s): ...[more].
Reference(s): [1] Roberton AM., et al., 1980
External database links:  
ECOCYC:
 GLUCARDEHYDRA-MONOMER
ECOLIWIKI:
 b2787
INTERPRO:
 IPR029065
INTERPRO:
 IPR013342
INTERPRO:
 IPR017653
INTERPRO:
 IPR029017
INTERPRO:
 IPR034598
INTERPRO:
 IPR036849
INTERPRO:
 IPR034593
MODBASE:
 P0AES2
PANTHER:
 PTHR43287
PDB:
 3PWI
PDB:
 3PWG
PDB:
 4GYP
PDB:
 1JCT
PDB:
 1EC7
PDB:
 1EC8
PDB:
 1EC9
PDB:
 1ECQ
PDB:
 1JDF
PFAM:
 PF13378
PRIDE:
 P0AES2
PRODB:
 PRO_000022853
REFSEQ:
 NP_417267
SMART:
 SM00922
SMR:
 P0AES2
SWISSMODEL:
 P0AES2
UNIPROT:
 P0AES2


Operon      
Name: gudPXD         
Operon arrangement:
Transcription unit        Promoter
gudPXD


Transcriptional Regulation      
Display Regulation             
Activated by: CdaR


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_3088 2916877 forward nd [RS-EPT-CBR] [2]
  promoter gudDp1 2919513 reverse nd [ICWHO] [3]


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] Roberton AM., Sullivan PA., Jones-Mortimer MC., Kornberg HL., 1980, Two genes affecting glucarate utilization in Escherichia coli K12., J Gen Microbiol 117(2):377-82

 [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.

 [3] 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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