gcvPB

168

glycine decarboxylase (subunit 2)

locus: BSU_24550

Molecular weight: 54.26 kDa

pI: 5.28

Protein length: 488 aa

Gene length: 1467 bp

function: glycine utilization

product: glycine decarboxylase (subunit 2)

essential: no

ec: 1.4.4.2

synonyms: gcvPB, yqhK, gcvP

List of homologs in different organisms, belongs to COG1003 (Galperin et al., 2021)

Gene

Coordinates: 2,545,410  2,546,876

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The protein

Catalyzed reaction/ biological activity

• glycine + H⁺ + N⁶-lipoyl-L-lysyl-[glycine-cleavage complex H protein] --> (R)-N⁶-(S⁸-aminomethyldihydrolipoyl)-L-lysyl-[glycine-cleavage complex H protein] + CO₂ (according to UniProt)

Protein family

• GcvP family (with [protein|DB0618EBA12013842ED3972165D0276F438D8EC1|gcvPA], according to UniProt)

[wiki|Cofactors]

• pyridoxal phosphate (according to UniProt)

Structure

• [PDB|1WYT] (the [protein|DB0618EBA12013842ED3972165D0276F438D8EC1|gcvPA]-[protein|20175DF9FCF07C34A05C572B089C33D1E1FE6DF2|gcvPB] complex from Thermus thermophilus, 56% identity) [pubmed|15791207]
• [AF|P54377]

[wiki|Localization]

• cytoplasm (according to UniProt)

Expression and Regulation

Operons

• genes: [gene|F6F449170276055E6D60D89E9E17A152A82CA166|gcvT]-[gene|DB0618EBA12013842ED3972165D0276F438D8EC1|gcvPA]-[gene|20175DF9FCF07C34A05C572B089C33D1E1FE6DF2|gcvPB]

  description: [Pubmed|15472076]

  regulation

  • induced by glycine [Pubmed|15472076]
  • the [wiki|Gly-box] RNA is degraded by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] [pubmed|29794222]

  regulatory mechanism

  • Gly-box: RNA switch, [pubmed|31992591], in [regulon|other_regulator:Gly-box|Gly-box]

Biological materials

Mutant

• MGNA-C470 (yqhK::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2468 NBRP B. subtilis, Japan]
• BKE24550 ([gene|20175DF9FCF07C34A05C572B089C33D1E1FE6DF2|gcvPB]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE24550 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_TTCAAAAATAAGTGCCTGGT,  downstream forward: _UP4_TAAATAAAAACAGCTGTCTA
• BKK24550 ([gene|20175DF9FCF07C34A05C572B089C33D1E1FE6DF2|gcvPB]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK24550 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_TTCAAAAATAAGTGCCTGGT,  downstream forward: _UP4_TAAATAAAAACAGCTGTCTA

References

• 12107147,15472076,28516784,15791207