Sequencing of a cellulosome-integrating gene cluster in Acetivibrio cellulolyticus was completed. The cluster contains four tandem scaffoldin genes (scaA, scaB, scaC, and scaD) bounded upstream and downstream, respectively, by a presumed cellobiose phosphorylase and a nucleotide methylase. The sequences and properties of scaA, scaB, and scaC were reported previously, and those of scaD are reported here. The scaD gene encodes an 852-residue polypeptide that includes a signal peptide, three cohesins, and a C-terminal S-layer homology (SLH) module. The calculated molecular weight of the mature ScaD is 88,960; a 67-residue linker segment separates cohesins 1 and 2, and two ϳ30-residue linkers separate cohesin 2 from 3 and cohesin 3 from the SLH module. The presence of an SLH module in ScaD indicates its role as an anchoring protein. The first two ScaD cohesins can be classified as type II, similar to the four cohesins of ScaB. Surprisingly, the third ScaD cohesin belongs to the type I cohesins, like the seven ScaA cohesins. ScaD is the first scaffoldin to be described that contains divergent types of cohesins as integral parts of the polypeptide chain. The recognition properties among selected recombinant cohesins and dockerins from the different scaffoldins of the gene cluster were investigated by affinity blotting. The results indicated that the divergent types of ScaD cohesins also differ in their preference of dockerins. ScaD thus plays a dual role, both as a primary scaffoldin, capable of direct incorporation of a single dockerin-borne enzyme, and as a secondary scaffoldin that anchors the major primary scaffoldin, ScaA and its complement of enzymes to the cell surface.Cellulosomes are multienzyme complexes that are designed to efficiently degrade cellulose and related plant cell wall polysaccharides (5-10, 18-20, 22, 28, 51, 52). Bacterial cellulosomes are organized by means of a special type of subunit, the scaffoldin, which is comprised of an array of cohesin modules. The cohesin interacts selectively and tenaciously with a complementary type of domain, the dockerin, which is borne by each of the cellulosomal enzyme subunits. The integrity of the complex is thus maintained by the cohesin-dockerin interaction (4).In Clostridium thermocellum, the first cellulosome to have been described, the scaffoldin gene product (CipA) is located in a gene cluster (24) which also includes a series of genes that encode cohesin-containing anchoring proteins downstream of CipA. These anchoring proteins contain one or more cohesins and a C-terminal S-layer homology (SLH) module that mediates attachment to the cell surface (21). In contrast to the arrangement of the gene cluster in C. thermocellum, for other cellulosome-producing species, such as Clostridium cellulolyticum and Clostridium cellulovorans, gene clusters that comprise a series of genes coding for cellulosomal (dockerin-containing) enzymes instead of anchoring proteins have been described (2,11,19,53). The difference between the scaffoldins of the latter bacteria and...