Reference on EC 6.3.2.9 - UDP-N-acetylmuramoyl-L-alanine-D-glutamate ligase
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REF. 
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Linnett, P.E.; Tipper, D.J.
Cell wall polymers of Bacillus sphaericus: activities of enzymes involved in peptidoglycan precursor synthesis during sporulation
J. Bacteriol.
120
342-354
1974
Lysinibacillus sphaericus, Lysinibacillus sphaericus 9602
Good, C.M.; Tipper, D.J.
Conditional mutants of Staphylococcus aureus defective in cell wall precursor synthesis
J. Bacteriol.
111
231-241
1972
Staphylococcus aureus
Ito, E.; Strominger, J.L.
Enzymatic synthesis of the peptide in bacterial uridine nucleotides. I. Enzymatic addition of L-alanine, D-glutamic acid, and L-lysine
J. Biol. Chem.
237
2689-2695
1962
Staphylococcus aureus
-
Mengin-Lecreulx, D.; Flouret, B.; Van Heijenoort, J.
Cytoplasmic steps of peptidoglycan synthesis in Escherichia coli
J. Bacteriol.
151
1109-1117
1982
Escherichia coli
Michaud, C.; Blanot, D.; Flouret, B.; van Heijenoort, J.
Partial purification and specificity studies of the D-glutamate-adding and D-alanyl-D-alanine-adding enzymes from Escherichia coli K12
Eur. J. Biochem.
166
631-637
1987
Escherichia coli
Reusch, V.M.; Hale, S.G.; Hurly, B.J.
Levels of cell wall enzymes in endospores and vegetative cells of Bacillus subtilis
J. Bacteriol.
152
1147-1153
1982
Bacillus subtilis, Bacillus subtilis 168
Nathenson, S.G.; Strominger, J.L.; Ito, E.
Enzymatic synthesis of the peptide in bacterial uridine nucleotides. IV. Purification and properties of alpha-glutamic acid-adding enzyme
J. Biol. Chem.
239
1773-1776
1964
Staphylococcus aureus
Pratviel-Sosa, F.; Acher, F.; Trigalo, F.; Blanot, D.; Azerad, R.; van Heijenoort, J.
Effect of various analogous of D-glutamic acid on the D-glutamate-adding enzyme from Escherichia coli
FEMS Microbiol. Lett.
115
223-228
1994
Escherichia coli
Ikeda, M.; Wachi, M.; Ishino, F.; Matsuhashi, M.
Nucleotide sequence involving murD and an open reading frame ORF-Y spacing murF and ftsW in Escherichia coli
Nucleic Acids Res.
18
1058
1990
Escherichia coli
Vaganay, S.; Tanner, M.E.; van Heijenoort, J.; Blanot, D.
Study of the reaction mechanism of the D-glutamic acid-adding enzyme from Escherichia coli
Microb. Drug Resist.
2
51-54
1996
Escherichia coli
Tanner, M.E.; Vaganay, S.; van Heijenoort, J.; Blanot, D.
Phosphinate inhibitors of the D-glutamic acid-adding enzyme of peptidoglycan biosynthesis
J. Org. Chem.
61
1756-1760
1996
Escherichia coli
Bertrand, J.A.; Auger, G.; Fanchon, E.; Martin, L.; Blanot, D.; van Heijenoort, J.; Dideberg, O.
Crystal structure of UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase from Escherichia coli
EMBO J.
16
3416-3425
1997
Escherichia coli (P14900), Escherichia coli
Pratviel-Sosa, F.; Mengin-Lecreulx, D.; van Heijenoort, J.
Over-production, purification and properties of the uridine diphosphate N-acetylmuramoyl-L-alanine:D-glutamate ligase from Escherichia coli
Eur. J. Biochem.
202
1169-1176
1991
BRENDA: Escherichia coli
Textmining: plasmids
Bouhss, A.; Dementin, S.; Parquet, C.; Mengin-Lecreulx, D.; Bertrand, J.A.; Le Beller, D.; Dideberg, O.; van Heijenoort, J.; Blanot, D.
Role of the ortholog and paralog amino acid invariants in the active site of the UDP-MurNAc-L-alanine:D-glutamate ligase (MurD)
Biochemistry
38
12240-12247
1999
Escherichia coli, Escherichia coli DH5-alpha
Gegnas, L.D.; Waddell, S.T.; Chabin, R.M.; Reddy, S.; Wong, K.K.
Inhibitors of the bacterial cell wall biosynthesis enzyme MurD
Bioorg. Med. Chem. Lett.
8
1643-1648
1998
Escherichia coli
Bouhss, A.; Dementin, S.; van Heijenoort, J.; Parquet, C.; Blanot, D.
Formation of adenosine 5'-tetraphosphate from the acyl phosphate intermediate: a difference between the MurC and MurD synthetases of Escherichia coli
FEBS Lett.
453
15-19
1999
Escherichia coli, Escherichia coli JM83(pMLD58)
El-Sherbeini, M.; Geissler, W.M.; Pittman, J.; Yuan, X.; Wong, K.K.; Pompliano, D.L.
Cloning and expression of Staphylococcus aureus and Streptococcus pyogenes murD genes encoding uridine diphosphate N-acetylmuramoyl-L-alanine:D-glutamate ligases
Gene
210
117-125
1998
Staphylococcus pyogenes, Staphylococcus aureus (P0A091), Staphylococcus pyogenes MB4439
Bertrand, J.A.; Auger, G.; Martin, L.; Fanchon, E.; Blanot, D.; Le Beller, D.; van Heijenoort, J.; Dideberg, O.
Determination of the MurD mechanism through crystallographic analysis of enzyme complexes
J. Mol. Biol.
289
579-590
1999
Escherichia coli (P14900), Escherichia coli JM83(pMLD58) (P14900)
Bertrand, J.A.; Fanchon, E.; Martin, L.; Chantalat, L.; Auger, G.; Blanot, D.; van Heijenoort, J.; Dideberg, O.
"Open" structures of MurD: domain movements and structural similarities with folylpolyglutamate synthetase
J. Mol. Biol.
301
1257-1266
2000
Escherichia coli (P14900), Escherichia coli
Sheng, Y.; Sun, X.; Shen, Y.; Bognar, A.L.; Baker, E.N.; Smith, C.A.
Structural and functional similarities in the ADP-forming amide bond ligase superfamily: implications for a substrate-induced conformational change in folylpolyglutamate synthetase
J. Mol. Biol.
302
427-440
2000
Lacticaseibacillus casei, Lacticaseibacillus casei (P15925)
Bouhss, A.; Dementin, S.; Van Heijenoort, J.; Parquet, C.; Blanot, D.
MurC and MurD synthetases of peptidoglycan biosynthesis: borohydride trapping of acyl-phosphate intermediates
Methods Enzymol.
354
189-196
2002
Escherichia coli, Escherichia coli JM83(pMLD58)
Auger, G.; Martin, L.; Bertrand, J.; Ferrari, P.; Fanchon, E.; Vaganay, S.; Petillot, Y.; van Heijenoort, J.; Blanot, D.; Dideberg, O.
Large-scale preparation, purification, and crystallization of UDP-N-acetylmuramoyl-L-alanine: D-glutamate ligase from Escherichia coli
Protein Expr. Purif.
13
23-29
1998
Escherichia coli, Escherichia coli JM83(pMLD58)
Kotnik, M.; Humljan, J.; Contreras-Martel, C.; Oblak, M.; Kristan, K.; Herve, M.; Blanot, D.; Urleb, U.; Gobec, S.; Dessen, A.; Solmajer, T.
Structural and functional characterization of enantiomeric glutamic acid derivatives as potential transition state analogue inhibitors of MurD ligase
J. Mol. Biol.
370
107-115
2007
Escherichia coli (P14900)
Paradis-Bleau, C.; Beaumont, M.; Boudreault, L.; Lloyd, A.; Sanschagrin, F.; Bugg, T.D.; Levesque, R.C.
Selection of peptide inhibitors against the Pseudomonas aeruginosa MurD cell wall enzyme
Peptides
27
1693-1700
2006
Pseudomonas aeruginosa
Humljan, J.; Kotnik, M.; Boniface, A.; Solmajer, T.; Urleb, U.; Blanot, D.; Gobec, S.
A new approach towards peptidosulfonamides: synthesis of potential inhibitors of bacterial peptidoglycan biosynthesis enzymes MurD and MurE
Tetrahedron
62
10980-10988
2006
Escherichia coli
-
Thakur, M.; Chakraborti, P.K.
Ability of PknA, a mycobacterial eukaryotic-type serine/threonine kinase, to transphosphorylate MurD, a ligase involved in the process of peptidoglycan biosynthesis
Biochem. J.
415
27-33
2008
Mycobacterium tuberculosis (A5U4I2), Mycobacterium tuberculosis H37Ra / ATCC 25177 (A5U4I2)
Bratkovic, T.; Lunder, M.; Urleb, U.; Strukelj, B.
Peptide inhibitors of MurD and MurE, essential enzymes of bacterial cell wall biosynthesis
J. Basic Microbiol.
48
202-206
2008
Escherichia coli
Frlan, R.; Kovac, A.; Blanot, D.; Gobec, S.; Pecar, S.; Obreza, A.
Design and synthesis of novel N-benzylidenesulfonohydrazide inhibitors of MurC and MurD as potential antibacterial agents
Molecules
13
11-30
2008
Escherichia coli
Perdih, A.; Hodoscek, M.; Solmajer, T.
MurD ligase from E. coli: Tetrahedral intermediate formation study by hybrid quantum mechanical/molecular mechanical replica path method
Proteins
15
744-759
2008
Escherichia coli
Turk, S.; Kovac, A.; Boniface, A.; Bostock, J.M.; Chopra, I.; Blanot, D.; Gobec, S.
Discovery of new inhibitors of the bacterial peptidoglycan biosynthesis enzymes MurD and MurF by structure-based virtual screening
Bioorg. Med. Chem.
17
1884-1889
2009
Escherichia coli (P14900)
Kristan, K.; Kotnik, M.; Oblak, M.; Urleb, U.
New high-throughput fluorimetric assay for discovering inhibitors of UDP-N-acetylmuramyl-L-alanine: D-glutamate (MurD) ligase
J. Biomol. Screen.
14
412-418
2009
Escherichia coli
Simcic, M.; Hodoscek, M.; Humljan, J.; Kristan, K.; Urleb, U.; Kocjan, D.; Grdadolnik, S.G.
NMR and molecular dynamics study of the binding mode of naphthalene-N-sulfonyl-D-glutamic acid derivatives: novel MurD ligase inhibitors
J. Med. Chem.
52
2899-2908
2009
Escherichia coli (P14900)
Perdih, A.; Bren, U.; Solmajer, T.
Binding free energy calculations of N-sulphonyl-glutamic acid inhibitors of MurD ligase
J. Mol. Model.
15
983-996
2009
BRENDA: Escherichia coli (P14900)
Textmining: collection
Patin, D.; Boniface, A.; Kovac, A.; Herv, M.; Dementin, S.; Barreteau, H.; Mengin-Lecreulx, D.; Blanot, D.
Purification and biochemical characterization of Mur ligases from Staphylococcus aureus
Biochimie
92
1793-1800
2010
Staphylococcus aureus
Sosic, I.; Barreteau, H.; Simcic, M.; Sink, R.; Cesar, J.; Zega, A.; Grdadolnik, S.G.; Contreras-Martel, C.; Dessen, A.; Amoroso, A.; Joris, B.; Blanot, D.; Gobec, S.
Second-generation sulfonamide inhibitors of d-glutamic acid-adding enzyme: Activity optimisation with conformationally rigid analogues of D-glutamic acid
Eur. J. Med. Chem.
46
2880-2894
2011
Escherichia coli (P14900)
Tomasic, T.; Kovac, A.; Simcic, M.; Blanot, D.; Grdadolnik, S.G.; Gobec, S.; Kikelj, D.; Peterlin Masic, L.
Novel 2-thioxothiazolidin-4-one inhibitors of bacterial MurD ligase targeting D-Glu- and diphosphate-binding sites
Eur. J. Med. Chem.
46
3964-3975
2011
Escherichia coli (P14900), Escherichia coli
Umamaheswari, A.; Pradhan, D.; Hemanthkumar, M.
Virtual screening for potential inhibitors of homology modeled Leptospira interrogans MurD ligase
J. Chem. Biol.
13
175-187
2010
Leptospira interrogans (Q8F7V4)
-
Zidar, N.; Tomasic, T.; Sink, R.; Rupnik, V.; Kovac, A.; Turk, S.; Patin, D.; Blanot, D.; Contreras Martel, C.; Dessen, A.; Mueller Premru, M.; Zega, A.; Gobec, S.; Peterlin Masic, L.; Kikelj, D.
Discovery of novel 5-benzylidenerhodanine and 5-benzylidenethiazolidine-2,4-dione inhibitors of MurD ligase
J. Med. Chem.
53
6584-6594
2010
Escherichia coli (P14900), Escherichia coli
Tomasic, T.; Zidar, N.; Sink, R.; Kovac, A.; Blanot, D.; Contreras-Martel, C.; Dessen, A.; Muller-Premru, M.; Zega, A.; Gobec, S.; Kikelj, D.; Peterlin Masic, L.
Structure-based design of a new series of D-glutamic acid based inhibitors of bacterial UDP-N-acetylmuramoyl-l-alanine:d-glutamate ligase (MurD)
J. Med. Chem.
54
4600-4610
2011
BRENDA: Escherichia coli (P14900), Escherichia coli
Textmining: Staphylococcus aureus, Enterococcus faecalis
Tomasic, T.; Kovac, A.; Klebe, G.; Blanot, D.; Gobec, S.; Kikelj, D.; Masic, L.P.
Virtual screening for potential inhibitors of bacterial MurC and MurD ligases
J. Mol. Model.
18
1063-1072
2012
Escherichia coli (P14900)
Sink, R.; Kotnik, M.; Zega, A.; Barreteau, H.; Gobec, S.; Blanot, D.; Dessen, A.; Contreras-Martel, C.
Crystallographic study of peptidoglycan biosynthesis enzyme MurD: domain movement revisited
PLoS ONE
11
e0152075
2016
Escherichia coli (P14900)
Paradis-Bleau, C.; Beaumont, M.; Boudreault, L.; Lloyd, A.; Sanschagrin, F.; Bugg, T.D.; Levesque, R.C.
Selection of peptide inhibitors against the Pseudomonas aeruginosa MurD cell wall enzyme
Peptides
27
1693-1700
2006
Pseudomonas aeruginosa
Umamaheswari, A; Pradhan, D; Hemanthkumar, M
Virtual screening for potential inhibitors of homology modeled Leptospira interrogans MurD ligase.
J Chem Biol
3
175-87
2010
Leptospira interrogans
Arvind, A; Kumar, V; Saravanan, P; Mohan, CG
Homology modeling, molecular dynamics and inhibitor binding study on MurD ligase of Mycobacterium tuberculosis.
Interdiscip Sci
4
223-38
2012
Mycobacterium tuberculosis, Mycobacterium
Samal, HB; Das, JK; Mahapatra, RK; Suar, M
Molecular modeling, simulation and virtual screening of MurD ligase protein from Salmonella typhimurium LT2.
J Pharmacol Toxicol Methods
73
34-41
0
Bacteria
Isa, MA
Homology modeling and molecular dynamic simulation of UDP-N-acetylmuramoyl-l-alanine-d-glutamate ligase (MurD) from Mycobacterium tuberculosis H37Rv using in silico approach.
Comput Biol Chem
78
116-126
2019
Mycobacterium tuberculosis H37Rv
Jha, RK; Khan, RJ; Amera, GM; Singh, E; Pathak, A; Jain, M; Muthukumaran, J; Singh, AK
Identification of promising molecules against MurD ligase from Acinetobacter baumannii: insights from comparative protein modelling, virtual screening, molecular dynamics simulations and MM/PBSA analysis.
J Mol Model
26
304
2020
Acinetobacter baumannii, Bacteria, Escherichia coli, bacterium
Mengin-Lecreulx, D; Parquet, C; Desviat, LR; Plá, J; Flouret, B; Ayala, JA; van Heijenoort, J
Organization of the murE-murG region of Escherichia coli: identification of the murD gene encoding the D-glutamic-acid-adding enzyme.
J Bacteriol
171
6126-34
1989
Escherichia coli, plasmids, collection
Leach, F; Wacks, DB; Signer, ER
Rhizobium meliloti homologs of Escherichia coli mur genes.
Gene
148
87-90
1994
Escherichia coli, Sinorhizobium meliloti, Rhizobium meliloti Rm1021, Dickeya chrysanthemi
Barreteau, H; Sosi?, I; Turk, S; Humljan, J; Tomai?, T; Zidar, N; Herv, M; Boniface, A; Peterlin-Mai?, L; Kikelj, D; Mengin-Lecreulx, D; Gobec, S; Blanot, D
MurD enzymes from different bacteria: Evaluation of inhibitors.
Biochem Pharmacol
84
625-32
2012
Bacteria, Borreliella burgdorferi, Escherichia coli, Staphylococcus aureus, Streptococcus pneumoniae, Mycobacterium tuberculosis
Tomasić, T; Zidar, N; Rupnik, V; Kovac, A; Blanot, D; Gobec, S; Kikelj, D; Masic, LP
Synthesis and biological evaluation of new glutamic acid-based inhibitors of MurD ligase.
Bioorg Med Chem Lett
19
153-7
2009
Escherichia coli
Zidar, N; Tomai?, T; ink, R; Kova?, A; Patin, D; Blanot, D; Contreras-Martel, C; Dessen, A; Premru, MM; Zega, A; Gobec, S; Mai?, LP; Kikelj, D
New 5-benzylidenethiazolidin-4-one inhibitors of bacterial MurD ligase: design, synthesis, crystal structures, and biological evaluation.
Eur J Med Chem
46
5512-23
2011
Staphylococcus aureus, Enterococcus faecalis
Perdih, A; Wolber, G; Solmajer, T
Molecular dynamics simulation and linear interaction energy study of D-Glu-based inhibitors of the MurD ligase.
J Comput Aided Mol Des
27
723-38
2013
collection
Perdih, A; Hrast, M; Barreteau, H; Gobec, S; Wolber, G; Solmajer, TJ
Inhibitor design strategy based on an enzyme structural flexibility: A case of bacterial MurD ligase.
J Chem Inf Model
2014
collection
Sim?i?, M; Pureber, K; Kristan, K; Urleb, U; Kocjan, D; Grdadolnik, SG
A novel 2-oxoindolinylidene inhibitor of bacterial MurD ligase: Enzyme kinetics, protein-inhibitor binding by NMR and a molecular dynamics study.
Eur J Med Chem
83
92-101
2014
Escherichia coli
Naganuma, T; Iinuma, Y; Nishiwaki, H; Murase, R; Masaki, K; Nakai, R
Enhanced Bacterial Growth and Gene Expression of D-Amino Acid Dehydrogenase With D-Glutamate as the Sole Carbon Source.
Front Microbiol
9
2097
2018
Pseudomonas aeruginosa, Raoultella ornithinolytica, Streptomyces scopiformis
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