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Literature for peptidase S12.001: D-Ala-D-Ala carboxypeptidase B

Summary Alignment Tree Sequences Sequence features Distribution Structure Literature Substrates Pharma

(Topics flags: S Structure, P Specificity, I Inhibitor, V Review. To select only the references relevant to a single topic, click the link above. See explanation.)

    2020
  1. Cheng,Q. and DeYonker,N.J.
    Acylation and deacylation mechanism and kinetics of penicillin G reaction with Streptomyces R61 DD-peptidase
    J Comput Chem41, 1685-1697. PubMed  Europe PubMed DOI
    2. 2014
  2. Hargis,J.C., Vankayala,S.L., White,J.K. and Woodcock,H.L.
    Identification and characterization of noncovalent interactions that drive binding and specificity in DD-peptidases and beta-lactamases
    J Chem Theory Comput10, 855-864. PubMed  Europe PubMed DOI  I
  3. Hargis,J.C., White,J.K., Chen,Y. and Woodcock,H.L.
    Can molecular dynamics and QM/MM solve the penicillin binding protein protonation puzzle?
    J Chem Inf Model54, 1412-1424. PubMed  Europe PubMed DOI
    4. 2012
  4. Pelto,R.B. and Pratt,R.F.
    Kinetics and stereochemistry of hydrolysis of an N-(phenylacetyl)-alpha-hydroxyglycine ester catalyzed by serine beta-lactamases and dd-peptidases
    Org Biomol Chem10, 7356-7362. PubMed  Europe PubMed DOI  P
  5. Pratt,R.F. and Frere,J.M.
    Streptomyces R61 D-Ala-D-Ala carboxypeptidase
    [ISSN:978-0-12-407742-3]3, 3458-3463. DOI
    6. 2011
  6. Arima,J., Usuki,H., Hatanaka,T. and Mori,N.
    One-pot synthesis of diverse DL-configuration dipeptides by a Streptomyces D-stereospecific amidohydrolase
    Appl Environ Microbiol77, 8209-8218. PubMed  Europe PubMed DOI
    7. 2008
  7. Maglia,G., Jonckheer,A., De Maeyer,M., Frere,J.M. and Engelborghs,Y.
    An unusual red-edge excitation and time-dependent Stokes shift in the single tryptophan mutant protein DD-carboxypeptidase from Streptomyces: the role of dynamics and tryptophan rotamers
    Protein Sci17, 352-361. PubMed  Europe PubMed DOI
  8. Pratt,R.F.
    Substrate specificity of bacterial DD-peptidases (penicillin-binding proteins)
    Cell Mol Life Sci65, 2138-2155. PubMed  Europe PubMed DOI  V  P
    9. 2006
  9. [YEAR:31-10-2006]Adediran,S.A., Kumar,I. and Pratt,R.F.
    Deacylation transition states of a bacterial DD-peptidase
    Biochemistry45, 13074-13082. PubMed  Europe PubMed DOI
    10. 2005
  10. [YEAR:2-8-2005]Kumar,I. and Pratt,R.F.
    Transpeptidation reactions of a specific substrate catalyzed by the Streptomyces R61 DD-peptidase: characterization of a chromogenic substrate and acyl acceptor Design
    Biochemistry44, 9971-9979. PubMed  Europe PubMed DOI
  11. [YEAR:2-8-2005]Kumar,I. and Pratt,R.F.
    Transpeptidation reactions of a specific substrate catalyzed by the Streptomyces R61 DD-peptidase: the structural basis of acyl acceptor specificity
    Biochemistry44, 9961-9970. PubMed  Europe PubMed DOI
  12. [YEAR:31-5-2005]Llinas,A., Ahmed,N., Cordaro,M., Laws,A.P., Frere,J.M., Delmarcelle,M., Silvaggi,N.R., Kelly,J.A. and Page,M.I.
    Inactivation of bacterial DD-peptidase by beta-sultams
    Biochemistry44, 7738-7746. PubMed  Europe PubMed DOI  I
  13. [YEAR:30-9-2005]Rhazi,N., Delmarcelle,M., Sauvage,E., Jacquemotte,F., Devriendt,K., Tallon,V., Ghosez,L. and Frere,J.M.
    Specificity and reversibility of the transpeptidation reaction catalyzed by the Streptomyces R61 D-Ala-D-Ala peptidase
    Protein Sci14, 2922-2928. PubMed  Europe PubMed DOI
  14. [YEAR:21-1-2005]Silvaggi,N.R., Josephine,H.R., Kuzin,A.P., Nagarajan,R., Pratt,R.F. and Kelly,J.A.
    Crystal structures of complexes between the R61 DD-peptidase and peptidoglycan-mimetic beta-lactams: a non-covalent complex with a "perfect penicillin"
    J Mol Biol345, 521-533. PubMed  Europe PubMed DOI  S
    15. 2004
  15. Frere,J.M.
    Streptomyces R61 D-Ala-D-Ala carboxypeptidase
    [ISSN:0-12-079610-4]2, 1959-1962.  V
  16. Josephine,H.R., Kumar,I. and Pratt,R.F.
    The perfect penicillin? Inhibition of a bacterial DD-peptidase by peptidoglycan-mimetic beta-lactams
    J Am Chem Soc126, 8122-8123. PubMed  Europe PubMed DOI  I
  17. [YEAR:29-11-2004]Nagarajan,R. and Pratt,R.F.
    Synthesis and evaluation of new substrate analogues of Streptomyces R61 DD-peptidase: dissection of a specific ligand
    J Org Chem69, 7472-7478. PubMed  Europe PubMed DOI
  18. Silvaggi,N.R., Kaur,K., Adediran,S.A., Pratt,R.F. and Kelly,J.A.
    Toward better antibiotics: crystallographic studies of a novel class of DD-peptidase/beta-lactamase inhibitors
    Biochemistry43, 7046-7053. PubMed  Europe PubMed DOI  S  I
    19. 2003
  19. [YEAR:1-8-2003]Anderson,J.W., Adediran,S.A., Charlier,P., Nguyen-Disteche,M., Frere,J.M., Nicholas,R.A. and Pratt,R.F.
    On the substrate specificity of bacterial DD-peptidases: evidence from two series of peptidoglycan-mimetic peptides
    Biochem J373, 949-955. PubMed  Europe PubMed DOI
  20. [YEAR:11-2-2003]Silvaggi,N.R., Anderson,J.W., Brinsmade,S.R., Pratt,R.F. and Kelly,J.A.
    The crystal structure of phosphonate-inhibited D-Ala-D-Ala peptidase reveals an analogue of a tetrahedral transition state
    Biochemistry42, 1199-1208. PubMed  Europe PubMed DOI  S  I
    21. 2002
  21. McDonough,M.A., Anderson,J.W., Silvaggi,N.R., Pratt,R.F., Knox,J.R. and Kelly,J.A.
    Structures of two kinetic intermediates reveal species specificity of penicillin-binding proteins
    J Mol Biol322, 111-122. PubMed  Europe PubMed DOI  S
    22. 2001
  22. [YEAR:13-2-2001]Lee,W., McDonough,M.A., Kotra,L., Li,Z.H., Silvaggi,N.R., Takeda,Y., Kelly,J.A. and Mobashery,S.
    A 1.2-A snapshot of the final step of bacterial cell wall biosynthesis
    Proc Natl Acad Sci U S A98, 1427-1431. PubMed  Europe PubMed DOI  S
  23. Morrison,M.J., Li,N. and Pratt,R.F.
    Inverse acyl phosph(on)ates: substrates or inhibitors of beta-lactam-recognizing enzymes?
    Bioorg Chem29, 271-281. PubMed  Europe PubMed DOI  I
    24. 2000
  24. [YEAR:10-10-2000]Anderson,J.W. and Pratt,R.F.
    Dipeptide binding to the extended active site of the Streptomyces R61 D-alanyl-D-alanine-peptidase: the path to a specific substrate
    Biochemistry39, 12200-12209. PubMed  Europe PubMed DOI
    25. 1999
  25. [YEAR:2-2-1999]Adediran,S.A. and Pratt,R.F.
    Beta-secondary and solvent deuterium kinetic isotope effects on catalysis by the Streptomyces R61 DD-peptidase: Comparisons with a structurally similar class C beta-lactamase
    Biochemistry38, 1469-1477. PubMed  Europe PubMed DOI
  26. [YEAR:10-8-1999]Bernstein,N.J. and Pratt,R.F.
    On the importance of a methyl group in beta-lactamase evolution: free energy profiles and molecular modeling
    Biochemistry38, 10499-10510. PubMed  Europe PubMed DOI
    27. 1998
  27. Wilkin,J.M., Lamotte-Brasseur,J. and Frere,J.M.
    The catalytic mechanism of DD-peptidases: unexpected importance of tyrosine 280 in the transpeptidation reaction catalysed by the Streptomyces R61 DD-peptidase
    Cell Mol Life Sci54, 726-732. PubMed  Europe PubMed DOI
    28. 1995
  28. Kelly,J.A. and Kuzin,A.P.
    The refined crystallographic structure of a DD-peptidase penicillin-target enzyme at 1.6 A resolution
    J Mol Biol254, 223-236. PubMed  Europe PubMed DOI  S
  29. Kuzin,A.P., Liu,H., Kelly,J.A. and Knox,J.R.
    Binding of cephalothin and cefotaxime to D-ala-D-ala-peptidase reveals a functional basis of a natural mutation in a low-affinity penicillin-binding protein and in extended-spectrum beta-lactamases
    Biochemistry34, 9532-9540. PubMed  Europe PubMed DOI  S  I
    30. 1994
  30. Fanuel,L., Granier,B., Wilkin,J.M., Bellefroid-Bourguignon,C., Joris,B., Knowles,J., Komives,E., Van Beeumen,J., Ghuysen,J.M. and Frere,J.M.
    The precursor of the Streptomyces R61 DD-peptidase containing a C-terminal extension is inactive
    FEBS Lett351, 49-52. PubMed  Europe PubMed DOI
  31. Granier,B., Jamin,M., Adam,M., Galleni,M., Lakaye,B., Zorzi,W., Grandchamps,J., Wilkin,J.M., Fraipont,C., Joris,B., Duez,C., Nguyen-Disteche,M., Coyette,J., Leyh-Bouille,M., Dusart,J., Christiaens,L., Frere,J.M. and Ghuysen,J.M.
    Serine-type D-Ala-D-Ala peptidases and penicillin-binding proteins
    Methods Enzymol244, 249-266. PubMed  Europe PubMed DOI  V
  32. Wilkin,J.M., Dubus,A., Joris,B. and Frere,J.M.
    The mechanism of action of DD-peptidases: The role of threonine-299 and -301 in the Streptomyces R61 DD-peptidase
    Biochem J301, 477-483. PubMed  Europe PubMed
    33. 1993
  33. Wilkin,J.M., Jamin,M., Joris,B. and Frere,J.M.
    Mechanism of action of DD-peptidases: Role of asparagine-161 in the Streptomyces R61 DD-peptidase
    Biochem J293, 195-201. PubMed  Europe PubMed
    34. 1992
  34. Bourguignon-Bellefroid,C., Wilkin,J.M., Joris,B., Aplin,R.T., Houssier,C., Prendergast,F.G., Van Beeumen,J., Ghuysen,J.M. and Frere,J.M.
    Importance of the two tryptophan residues in the Streptomyces R61 exocellular DD-peptidase
    Biochem J282, 361-367. PubMed  Europe PubMed
  35. Bourguignon-Bellefroid,C., Joris,B., Van Beeumen,J., Ghuysen,J.M. and Frere,J.M.
    Point mutations of two arginine residues in the Streptomyces R61 DD-peptidase
    Biochem J283, 123-128. PubMed  Europe PubMed
  36. Hadonou,A.M., Jamin,M., Adam,M., Joris,B., Dusart,J., Ghuysen,J.M. and Frere,J.M.
    Importance of the His-298 residue in the catalytic mechanism of the Streptomyces R61 extracellular DD-peptidase
    Biochem J282, 495-500. PubMed  Europe PubMed
  37. [YEAR:12-3-1992]Kelly,J.A., Waley,S.G., Adam,M. and Frere,J.M.
    Crystalline enzyme kinetics: activity of the Streptomyces R61 D-alanyl-D-alanine peptidase
    Biochim Biophys Acta1119, 256-260. PubMed  Europe PubMed DOI
    38. 1991
  38. Ghuysen,J.M.
    Serine beta-lactamases and penicillin-binding proteins
    Annu Rev Microbiol45, 37-67. PubMed  Europe PubMed DOI
    39. 1990
  39. Piron-Fraipont,C., Lenzini,M.V., Dusart,J. and Ghuysen,J.M.
    Transcriptional analysis of the DD-peptidase/penicillin-binding protein-encoding dac gene of Streptomyces R61: use of the promoter and signal sequences in a secretion vector
    Mol Gen Genet223, 114-120. PubMed  Europe PubMed DOI
    40. 1989
  40. Kelly,J.A., Knox,J.R., Zhao,H., Frere,J.M. and Ghaysen,J.M.
    Crystallographic mapping of beta-lactams bound to a D-alanyl-D-alanine peptidase target enzyme
    J Mol Biol209, 281-295. PubMed  Europe PubMed  S
    41. 1987
  41. Duez,C., Piron-Fraipont,C., Joris,B., Dusart,J., Urdea,M.S., Martial,J.A., Frere,J.M. and Ghuysen,J.M.
    Primary structure of the Streptomyces R61 extracellular DD-peptidase. 1. Cloning into Streptomyces lividans and nucleotide sequence of the gene
    Eur J Biochem162, 509-518. PubMed  Europe PubMed
  42. Joris,B., Jacques,P., Frere,J.M., Ghuysen,J.M. and Van Beeumen,J.
    Primary structure of the Streptomyces R61 extracellular DD-peptidase. 2. Amino acid sequence data
    Eur J Biochem162, 519-524. PubMed  Europe PubMed
  43. [YEAR:2-2-1987]Varetto,L., Frere,J.M., Nguyen-Disteche,M., Ghuysen,J.M. and Houssier,C.
    The pH dependence of the active-site serine DD-peptidase of Streptomyces R61
    Eur J Biochem162, 525-531. PubMed  Europe PubMed
    44. 1986
  44. [YEAR:21-3-1986]Kelly,J.A., Dideberg,O., Charlier,P., Wery,J.P., Libert,M., Moews,P.C., Knox,J.R., Duez,C., Fraipont,C. and Joris,B.
    On the origin of bacterial resistance to penicillin: comparison of a beta-lactamase and a penicillin target
    Science231, 1429-1431. PubMed  Europe PubMed
    45. 1985
  45. Frere,J.M. and Joris,B.
    Penicillin-sensitive enzymes in peptidoglycan biosynthesis
    Crit Rev Microbiol11, 299-396. PubMed  Europe PubMed
  46. Kelly,J.A., Knox,J.R., Moews,P.C., Hite,G.J., Bartolone,J.B., Zhao,H., Joris,B., Frere,J.M. and Ghuysen,J.M.
    2.8-A Structure of penicillin-sensitive D-alanyl carboxypeptidase-transpeptidase from Streptomyces R61 and complexes with beta-lactams
    J Biol Chem260, 6449-6458. PubMed  Europe PubMed  S
    47. 1978
  47. Fossati,P., Saint-Ghislain,M., Sicard,P.J., Frere,J.M., Dusart,J., Klein,D. and Ghuysen,J.M.
    Large scale preparation of purified exocellular DD-carboxypeptidase-transpeptidase of Streptomyces strain R61
    Biotechnol Bioeng20, 577-587.
    48. 1976
  48. [YEAR:1-4-1976]Frere,J., Ghuysen,J., Vanderhaeghe,H., Adriaens,P., Degelaen,J. and De Graeve,J.
    Fate of thiazolidine ring during fragmentation of penicillin by exocellular DD-carboxypeptidase-transpeptidase of Streptomyces R61
    Nature260, 451-454. PubMed  Europe PubMed
  49. Frere,J.M., Duez,C., Ghuysen,J.M. and Vandekerkhove,J.
    Occurrence of a serine residue in the penicillin-binding site of the exocellular DD-carboxy-peptidase-transpeptidase from Streptomyces R61
    FEBS Lett70, 257-260. PubMed  Europe PubMed DOI
  50. Frere,J.M., Leyh-Bouille,M., Ghuysen,J.M., Nieto,M. and Perkins,H.R.
    Exocellular DD-carboxypeptidases-transpeptidases from Streptomyces
    Methods Enzymol45, 610-636. PubMed  Europe PubMed DOI  V
    51. 1973
  51. Frere,J.M., Ghuysen,J.M., Perkins,H.R. and Nieto,M.
    Molecular weight and amino acid composition of the exocellular DD-carboxypeptidase-transpeptidase of Streptomyces R61
    Biochem J135, 463-468. PubMed  Europe PubMed
  52. Frere,J.M., Ghuysen,J.M., Perkins,H.R. and Nieto,M.
    Kinetics of concomitant transfer and hydrolysis reactions catalysed by the exocellular DD-carboxypeptidase-transpeptidase of Streptomyces R61
    Biochem J135, 483-492. PubMed  Europe PubMed
    53. 1971
  53. [YEAR:25-5-1971]Leyh-Bouille,M., Coyette,J., Ghuysen,J.M., Idczak,J., Perkins,H.R. and Nieto,M.
    Penicillin-sensitive DD-carboxypeptidase from Streptomyces strain R 61
    Biochemistry10, 2163-2170. PubMed  Europe PubMed

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