RegulonDB RegulonDB 11.1: Gene Form
   

hemE gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

hemE nudC nfi TSS_4823 (cluster) TSS_4823 (cluster) yjaGp4 yjaGp4 TSS_4822 TSS_4822 TSS_4821 (cluster) TSS_4821 (cluster) TSS_4820 TSS_4820 rsdp1 rsdp1

Gene      
Name: hemE    Texpresso search in the literature
Synonym(s): ECK3989, EG11543, b3997
Genome position(nucleotides): 4197716 --> 4198780
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 56.06
External database links:  
ASAP:
 ABE-0013066
CGSC:
 644
ECHOBASE:
 EB1505
ECOLIHUB:
 hemE
MIM:
 176100
OU-MICROARRAY:
 b3997
STRING:
 511145.b3997
COLOMBOS: hemE


Product      
Name: uroporphyrinogen decarboxylase
Synonym(s): HemE
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 39.248
Isoelectric point: 6.249
Motif(s):
 
Type Positions Sequence Comment
5 -> 347 KNDRYLRALLRQPVDVTPVWMMRQAGRYLPEYKATRAQAGDFMSLCKNAELACEVTLQPLRRYPLDAAILFSDILTVPDAMGLGLYFEAGEGPRFTSPVTCKADVDKLPIPDPEDELGYVMNAVRTIRRELKGEVPLIGFSGSPWTLATYMVEGGSSKAFTVIKKMMYADPQALHALLDKLAKSVTLYLNAQIKAGAQAVMIFDTWGGVLTGRDYQQFSLYYMHKIVDGLLRENDGRRVPVTLFTKGGGQWLEAMAETGCDALGLDWTTDIADARRRVGNKVALQGNMDPSMLYAPPARIEEEVATILAGFGHGEGHVFNLGHGIHQDVPPEHAGVFVEAVHR
27 -> 31 RQAGR UniProt: Substrate binding; Sequence Annotation Type: region of interest.
72 -> 78 AILFSDI UniProt: In Ref. 1; BAA02148..
83 -> 83 D UniProt: In Ref. 1; BAA02148..
89 -> 103 LYFEAGEGPRFTSPV UniProt: In Ref. 1; BAA02148..

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.3 - cofactors, small molecule carriers --> 1.5.3.12 - heme, porphyrine
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0016829 - lyase activity
GO:0004853 - uroporphyrinogen decarboxylase activity
GO:0016831 - carboxy-lyase activity
biological_process GO:0006785 - heme B biosynthetic process
GO:0006779 - porphyrin-containing compound biosynthetic process
GO:0006780 - uroporphyrinogen III biosynthetic process
GO:0006783 - heme biosynthetic process
GO:0019353 - protoporphyrinogen IX biosynthetic process from glutamate
GO:0006782 - protoporphyrinogen IX biosynthetic process
Note(s): Note(s): ...[more].
Reference(s): [1] McConville ML., et al., 1979
[2] Pido S., et al., 1994
External database links:  
ALPHAFOLD:
 P29680
ECOCYC:
 UROGENDECARBOX-MONOMER
ECOLIWIKI:
 b3997
INTERPRO:
 IPR006361
INTERPRO:
 IPR000257
INTERPRO:
 IPR038071
MODBASE:
 P29680
PFAM:
 PF01208
PRIDE:
 P29680
PROSITE:
 PS00907
PROSITE:
 PS00906
REFSEQ:
 NP_418425
SMR:
 P29680
SWISSMODEL:
 P29680
UNIPROT:
 P29680


Operon      
Name: nudC-hemE-nfi         
Operon arrangement:
Transcription unit        Promoter
nudC-hemE-nfi


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_4820 4197692 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4821 (cluster) 4198655 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4822 4198700 forward nd [RS-EPT-CBR] [3]
  promoter yjaGp4 4199373 forward nd [COMP-AINF] [4]
  promoter TSS_4823 (cluster) 4199461 forward nd [RS-EPT-CBR] [3]


Evidence    

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

 [COMP-AINF] Inferred computationally without human oversight


Reference(s)    

 [1] McConville ML., Charles HP., 1979, Isolation of haemin-requiring mutants of Escherichia coli K12., J Gen Microbiol 113(1):155-64

 [2] Pido S., Tsoi KW., Umanoff H., Cosloy SD., Russell CS., 1994, Characterization of a hemA/hemE mutant of E. coli and regulation of hemE., Cell Mol Biol (Noisy-le-grand) 40(7):945-56

 [3] 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.

 [4] 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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