We show here that the high-molecular-weight protein (HMWP or pUL48; 253 kDa) of human cytomegalovirus (HCMV) is a functionally competent deubiquitinating protease (DUB). By using a suicide substrate probe specific for ubiquitin-binding cysteine proteases (DUB probe) to screen lysates of HCMV-infected cells, we found just one infected-cell-specific DUB. Characteristics of this protein, including its large size, expression at late times of infection, presence in extracellular virus particles, and reactivity with an antiserum to the HMWP, identified it as the HMWP. This was confirmed by constructing mutant viruses with substitutions in two of the putative active-site residues, Cys24Ile and His162Ala. HMWP with these mutations either failed to bind the DUB probe (C24I) or had significantly reduced reactivity with it (H162A). More compellingly, the deubiquitinating activity detected in wild-type virus particles was completely abolished in both the C24I and H162A mutants, thereby directly linking HMWP with deubiquitinating enzyme activity. Mutations in these active-site residues were not lethal to virus replication but slowed production of infectious virus relative to wild type and mutations of other conserved residues. Initial studies, by electron microscopy, of cells infected with the mutants revealed no obvious differences at late times of replication in the general appearance of the cells or in the distribution, relative numbers, or appearance of virus particles in the cytoplasm or nucleus.Herpesviruses contain a large double-stranded DNA genome that codes for many of the enzymes required to produce new infectious virus. Identification of these proteins and their functions has helped delineate the biology of herpesvirus replication and provided new targets for development of antiviral drugs. Among the enzymes known to be encoded by herpesviruses are DNA polymerase (39), DNase (2), dUTPase (38), helicase/primase (10, 50), maturational protease (31, 47), phosphotransferase (20), protein kinase (11, 16), ribonucleotide reductase (1), terminase (41, 45), thymidine kinase (25), ubiquitin ligase (7, 9), and uracil deglycosidase (8). Most recently added to this list is a ubiquitin-specific cysteine protease (USP), also called deubiquitinating enzyme (DUB), discovered in human fibroblasts infected with herpes simplex virus type 1 (HSV) (23). Increasing awareness of DUBs as major regulators in biological systems focuses attention on this viral enzyme for the information that it can provide about unknown steps in virus replication and potential sites for pharmacological intervention, as well as for insights that it may provide into more general aspects of this class of enzymes.The HSV DUB was identified by using a ubiquitin-derived active-site-directed probe (DUB probe) designed to selectively bind these enzymes by forming a covalent adduct with their active-site cysteine (5). Analysis of the isolated DUB (Ï·57 kDa with probe bound) established that its sequence is the same as the amino end of virion protein 1/2 (VP1/2, 336 ...