Family M9

Family

Summary Holotypes Alignment Tree Genomes Structure Literature

M9A

Summary Holotypes Alignment Tree Genomes Literature

M9B

Summary Holotypes Alignment Tree Genomes Literature

Summary for family M9

Family type peptidaseM09.001 - bacterial collagenase V (Vibrio alginolyticus), MEROPS Accession MER0001172 (peptidase unit: 76-531)
Content of familyPeptidase family M9 contains bacterial collagenases from Vibrio and Clostridium.
History Identifier created: Biochem.J. 290:205-218 (1993)
Catalytic typeMetallo
Active siteTwo histidine zinc ligands and the catalytic glutamate occur in the HEXXH motif. It is predicted that the third ligand is the first Glu located in a conserved EXXXE motif further toward the C-terminus (Rawlings et al., 2004).
Activities and specificitiesThe distinguishing feature between the Vibrio and clostridial peptidases is in their action on the peptide synthetic Pz-Pro-LeuGly-Ala-D-Arg which is only cleaved by Vibrio peptidases (Keil, 1992). The Vibrio collagenases show a preference for cleavage of a XaaGly bond in the alpha-1 chain type of collagen, degradation beginning at a point three-quarters of the way from the N-terminus. The clostridial collagenases are distinguished by their ability to cleave helical type I, II and III collagens into a mixture of small peptidases. The class I and II peptidases of Clostridium attack all three collagens at YaaGly bonds in the repeating Gly-Xaa-Yaa collagen sequence. Both type I and type II collagenases have a preference for Gly in P1" and P3 and for aromatic residues in P1 with Pro or Ala in P2 and P2" and Hyp, Ala or Arg in P3".
Inhibitors(p-nitrophenylethyl)-PO(OH)-Gly-Pro-(2-aminohexanoic acid) inhibits Vibrio collagenase (Ki 5 nM) (Dive et al., 1990). A number of substrate analogue inhibitors have been synthesized for the clostridial collagenases based on the use of mercaptan, ketone and phosphoramidate moeties as scissile bond surrogates (Schwartz & Van Wart, 1992).
Molecular structureVery little is known about the tertiary structures of the Vibrio and Clostridium collagenases.
ClanMA
SubclanMA(E)
Basis of clan assignmentPredicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH
Distribution of family Bacteria details  
Archaea details  
Protozoa -  
Fungi -  
Plants -  
Animals details  
Viruses -  
Biological functionsBoth the Vibrio and Clostridium collagenases are secreted enzymes, and are synthesized as precursors. Infection by Clostridium histolyticum is a cause of gas gangrene.
Pharmaceutical and biotech relevanceVibrio collagenase has potential for use in tissue cell dispersion, elastin purification and selective cleavage of gene products as well as possible applications in the removal of necrotic tissue from burns, ulcers and decubitus ulcers. Clostridium collagenases have uses in tissue dissociation experiments in the isolation of hepatocytes, adipocytes and other cells for research purposes (Seglen, 1976). Other uses include the isolation of pancreatic islets for transplantation, and the use of Clostridium collagenase in the treatment of herniated discs is under investigation (Hedtmann et al., 1992).
Statistics for family M9Sequences:349
Identifiers:4
Identifiers with PDB entries:1
Downloadable files Sequence library (FastA format)
Sequence alignment (FastA format)
Phylogenetic tree (Newick format)
Subfamily M9A
Name Peptidase subfamily M9A
Subfamily type peptidase M09.001 - bacterial collagenase V (Vibrio alginolyticus), MEROPS Accession MER0001172 (peptidase unit: 76-531)
Active site residues H477 E478 H481 E505 
Statistics Sequences: 133
Identifiers: 2
Identifiers with PDB entries: 0
Other databases INTERPRO IPR002169
PFAM PF01752
Downloadable files Sequence library [FastA format]
Sequence alignment [FastA format]
Phylogenetic tree [Newick format]
Peptidases and Homologues MEROPS ID Structure
bacterial collagenase VM09.001-
VMC peptidaseM09.004-
subfamily M9A non-peptidase homologuesnon-peptidase homologue-
subfamily M9A unassigned peptidasesunassigned-
Subfamily M9B
Name Peptidase subfamily M9B
Subfamily type peptidase M09.003 - bacterial collagenase H (Clostridium histolyticum), MEROPS Accession MER0001417 (peptidase unit: 88-529)
Active site residues H455 E456 H459 E487 
Statistics Sequences: 216
Identifiers: 2
Identifiers with PDB entries: 1
Other databases INTERPRO IPR002169
PFAM PF01752
PFAM PF08453
Downloadable files Sequence library [FastA format]
Sequence alignment [FastA format]
Phylogenetic tree [Newick format]
Peptidases and Homologues MEROPS ID Structure
bacterial collagenase G/AM09.002Yes
bacterial collagenase HM09.003-
subfamily M9B non-peptidase homologuesnon-peptidase homologue-
subfamily M9B unassigned peptidasesunassigned-
Peptidases not assigned to subfamily
Peptidases and Homologues MEROPS ID Structure
family M9 non-peptidase homologuesnon-peptidase homologue-
family M9 unassigned peptidasesunassigned-