MetaCyc Pathway: peptidoglycan biosynthesis II (staphylococci) in Dickeya dianthicola 67-19

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Reactions and Genes M9+polygalacturonate
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D-alanine--D-alanine ligase:
2 D-alanine + ATP→D-alanyl-D-alanine + ADP + H+ + phosphate (EC 6.3.2.4)
HGI48_RS03720 N.D.
Glutamate racemase:
L-glutamate→D-glutamate (EC 5.1.1.3)
HGI48_RS20375 +1.1
UDP-N-acetylglucosamine 1-carboxyvinyltransferase:
UDP-N-acetyl-α-D-glucosamine + phosphoenolpyruvate→UDP-N-acetyl-α-D-glucosamine-enolpyruvate + phosphate (EC 2.5.1.7)
HGI48_RS01510 N.D.
UDP-N-acetyl-α-D-glucosamine-enolpyruvate + NADPH + H+→UDP-N-acetyl-α-D-muramate + NADP+ (EC 1.3.1.98)
HGI48_RS01020 N.D.
UDP-N-acetylmuramate--L-alanine ligase:
UDP-N-acetyl-α-D-muramate + L-alanine + ATP→UDP-N-acetyl-α-D-muramoyl-L-alanine + ADP + H+ + phosphate (EC 6.3.2.8)
HGI48_RS17970 N.D.
UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase:
UDP-N-acetyl-α-D-muramoyl-L-alanine + D-glutamate + ATP→UDP-N-acetyl-α-D-muramoyl-L-alanyl-D-glutamate + ADP + H+ + phosphate (EC 6.3.2.9)
HGI48_RS17985 N.D.
UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase:
UDP-N-acetyl-α-D-muramoyl-L-alanyl-D-glutamate + L-lysine + ATP→UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysine + ADP + H+ + phosphate (EC 6.3.2.7)
No genes
UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase:
UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysine + D-alanyl-D-alanine + ATP→UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanyl-D-alanine + ADP + H+ + phosphate (EC 6.3.2.10)
HGI48_RS17995 N.D.
Phospho-N-acetylmuramoyl-pentapeptide-transferase:
UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanyl-D-alanine + di-trans,octa-cis-undecaprenyl phosphate→Und-PP-MurNAc-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala + UMP (EC 2.7.8.13)
HGI48_RS17990 N.D.
acetylglucosaminyltransferase:
Und-PP-MurNAc-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala + UDP-N-acetyl-α-D-glucosamine→Und-PP-[β-D-GlcNAc-(1->4)]-MurNAc-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala + H+ + UDP (EC 2.4.1.227)
HGI48_RS17975 N.D.
Und-PP-[β-D-GlcNAc-(1->4)]-MurNAc-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala + ATP + L-glutamine + H2O→L-glutamate + Und-PP-[β-D-GlcNAc-(1->4)]-MurNAc-L-Ala-γ-D-iGln-L-Lys-D-Ala-D-Ala + ADP + H+ + phosphate (EC 6.3.5.13)
No genes
Und-PP-[β-D-GlcNAc-(1->4)]-MurNAc-L-Ala-γ-D-iGln-L-Lys-D-Ala-D-Ala + a glycyl-[tRNAGly]→Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-(N6-Gly)-L-Lys-D-Ala-D-Ala + a tRNAGly + H+ (EC 2.3.2.16)
No genes
Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-(N6-Gly)-L-Lys-D-Ala-D-Ala + 2 a glycyl-[tRNAGly]→Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-[N6-(Gly3)]-L-Lys-D-Ala-D-Ala + 2 a tRNAGly + 2 H+ (EC 2.3.2.17)
No genes
Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-[N6-(Gly3)]-L-Lys-D-Ala-D-Ala + 2 a glycyl-[tRNAGly]→Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-(6-N-Gly5)-L-Lys-D-Ala-D-Ala + 2 a tRNAGly + 2 H+ (EC 2.3.2.18)
No genes
Peptidoglycan glycosyltransferase:
2 Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-(6-N-Gly5)-L-Lys-D-Ala-D-Ala→a nascent peptidoglycan dimer (S. aureus) + H+ + di-trans,octa-cis-undecaprenyl diphosphate (EC 2.4.1.129)
HGI48_RS16030 +0.2
HGI48_RS18005 N.D.
HGI48_RS19710 +0.4
Peptidoglycan glycosyltransferase:
Und-PP-[β-D-GlcNAc-(1→4)]-MurNAc-L-Ala-γ-D-iGln-(6-N-Gly5)-L-Lys-D-Ala-D-Ala + a nascent peptidoglycan (S. aureus)→a nascent peptidoglycan (S. aureus) + H+ + di-trans,octa-cis-undecaprenyl diphosphate (EC 2.4.1.129)
HGI48_RS16030 +0.2
HGI48_RS18005 N.D.
HGI48_RS19710 +0.4
Serine-type D-Ala-D-Ala carboxypeptidase:
a nascent peptidoglycan (S. aureus) + a peptidoglycan internal segment (S. aureus)→D-alanine + a peptidoglycan with D,D cross-link (S. aureus) (EC 3.4.16.4)
HGI48_RS00580 -0.3
HGI48_RS03180 -0.0
HGI48_RS06200 +1.5
HGI48_RS09435 +0.1

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Candidate genes for each reaction are identified from best hits to MetaCyc; by matching EC numbers (which are assigned by TIGRFam, SEED, or best hits to KEGG); or by matching SEED roles to KEGG reactions to MetaCyc reactions. See the "Protein" tab of each gene for more information