Monoclonal antibody to the region of fibronectin involved in cross-linking to human fibrin

A cross-link-containing fragment (alpha XLCNBr), derived from the alpha-polymer component of human fibrin following CNBr digestion, has been isolated and characterized. NH2-terminal sequence studies of three alpha XLCNBr derivatives, each prepared by a different method, indicate that the A alpha-chain regions comprised of residues 241-476 (CNBr VIII) and 518-584 (CNBr X) are the major constituents of the cross-linked fragments examined. Evidence for at least two additional sequences suggests that A alpha 208-235 (CNBr V) and A alpha 585-610 (CNBr XI) may have auxiliary roles in alpha-polymer formation. When alpha XLCNBr was used as an immunogen for the production of murine hybridoma cell lines, two groups of antibodies were obtained. The majority of supernatants from primary hybridoma cultures did not discriminate between fibrinogen and alpha XLCNBr and appeared to contain antibodies directed against determinants within either CNBr VIII or CNBr X [see Ehrlich, P. H., Sobel, J. H., Moustafa, Z. A., & Canfield, R. E. (1983) Biochemistry (following paper in this issue)]. Several supernatants from primary hybridoma cultures, however, did exhibit significant binding toward the alpha-polymer derivative in the absence of demonstrable immunoreactivity toward either highly purified fibrinogen or its A alpha-chain peptides, CNBr VIII and CNBr X.(ABSTRACT TRUNCATED AT 250 WORDS)     

Microheterogeneity of cross-linked gamma dimers isolated from bovine stabilized fibrin

Bovine stabilized fibrin was reduced, carboxymethylated and separated by chromatography on a Sepharose 4B column. The fraction containing cross-linked γ dimers was then subjected to linear gradient chromatography on a CM-52 column. On this column, the γ dimers were separated into an adsorbed and unadsorbed fraction. The components in these fractions were designated as the γ-1 and γ-2 dimers. They each gave a single band on SDS-polyacrylamide gel electrophoresis and both had a molecular weight of 90,000 (±2,000). The identities of the γ-1 and γ-2 dimers were also shown by their amino acid compositions, terminal residues and tryptic and plasmic maps. However, they differed in electrophoretic mobilities on gels at pH 8.3 and pH 3.6 and in carbohydrate composition. The γ-1 dimer was slightly acidic and contained more hexoses and glucosamine than the γ-2 dimer. These results indicate that the characteristics of the bovine monomeric γ chains, γ-1 and γ-2, previously reported by Gerbeck $\text{et al}$., are transferred to their corresponding cross-linked γ dimers, formed in the stabilization of fibrin.     

Polypeptide cross-linking in chloroplast membranes

Washed chloroplast membranes from romaine lettuce leaves were treated with the cross-linking reagent dimethyladipimidate (DMA) for various periods of time and subsequently analyzed by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Comparative examination of the electrophoretic profiles from control and treated membranes revealed that the light-harvesting chlorophyll-protein complex (LHCPC) was readily cross-linked to yield “dimers” and “oligomers” of higher molecular weight. Two polypeptides, of 25 and 23 kilodaltons, previously identified as two subunits of the LHCPC, were the major cross-linked species; other peptides were also cross-linked, but to a much lesser extent. These results suggest that cross-linking of chloroplast membranes with DMA, under our conditions, occurs primarily among the components of the LHCPC. We also measured the photosystem II activity in control and DMA-treated chloroplasts and found no impairment of this photochemical activity in the cross-linked chloroplasts as compared with controls.     

Identification of cyanogen bromide peptides involved in intermolecular cross-linking of bovine type III collagen.

Cyanogn bromide peptides derived from bovine type III collagen and containing reducible cross-links were isolated and identified. Two peptides, alpha 1 (III)CB7 and alpha 1 (III)CB9B, from within the helical portion of the molecule were shown to contain the 'amino donor' residues cross-linked to non-helical 'aldehyde donor' residues in the formation of cross-links. This information, in conjunction with previously published data for the order of the cyanogen bromide peptides [Fietzek, Allman, Rauterberg & Wachter (1977) Proc. Natl. Acad. Sci. U.S.A. 74, 84-86], suggests that in type III collagen intermolecular cross-links are located in the end-overlap regions, so as to stabilize a quarter-stagger arrangement of molecules within the fibre in a similar manner to that proposed for type I and type II collagens.     

Mechanisms involved in fibrin formation

That the role of thrombin in the conversion of fibrinogen to fibrin is essentially enzymatic, is established not only by the minute amounts of thrombin which are effective but also by the complete independence of fibrin yields and thrombin concentrations over a very wide range of thrombin dilutions and clotting times. The thrombin-fibrinogen reaction, in the phase beyond the "latent period" at least, seems fundamentally "first order." Technical requirements of the experiments leading to these conclusions include: (1) a highly purified (e.g. 97 per cent "clottable") fibrinogen, (2) absence of traces of thrombic impurities in the fibrinogen, (3) absence of fibrinolytic protease contaminant of the thrombin and the fibrinogen, and (4) sufficient stability of the thrombin even at very high dilutions. Four conditions affecting thrombin stability have been investigated. Fibrin yields are not significantly modified by numerous experimental circumstances that influence the clotting time, such as (1) temperature, (2) pH, (3) non-specific salt action due to electrical (ionic) charges, which alter the Coulomb forces involved in the fibrillar aggregation, (4) specific ion effects, whether clot-accelerating (e.g. Ca⁺⁺) or clot-inhibitory (e.g. Fe(CN)₆'), (5) occluding (adsorptive) colloids, which have a "fibrinoplastic" action, e.g. (a) acacia and probably (b) fibrinogen which has been mildly "denatured" by salt-heating, acidification, etc. The data with which several European workers have attempted to substantiate the idea of a two-stage thrombin-fibrinogen reaction with an intermediary "profibrin" (allegedly partly "denatured") have been reanalyzed with controls which lead us to very different conclusions, viz. (1) denaturation and fibrin formation are independent; (2) partial denaturation is "fibrinoplastic" (see above); and (3) conditions of strong salinity and acid pH (5.1) usually do not completely prevent the thrombin-fibrinogen reaction but merely prolong the "latent" phase and lessen the time required for completion of essentially the same reaction (fibrin polymerization) when more favorable clotting conditions are restored. Thus, our experiments advance the modern concepts concerning the coagulation mechanisms along lines that, for the most part, agree with those of the Harvard physical chemists, and we oppose the European views concerning a two-stage reaction, "profibrin," and "the denaturase theory" of clotting.     

Position of gamma-chain carboxy-terminal regions in fibrinogen/fibrin cross-linking mixtures

There are conflicting ideas regarding the location of the carboxyl-terminal regions of cross-linked gamma-chain dimers in double-stranded fibrin fibrils. Some investigators believe that the chains are always oriented longitudinally along each fibril strand and traverse the contacting ends of abutting fibrin D domains ("DD-long" cross-linking). Other investigations have indicated instead that the chains are situated transversely between adjacent D domains in opposing fibril strands (transverse cross-linking). To distinguish between these two possibilities, the gamma dimer composition of factor XIIIa-cross-linked fibrin/fibrinogen complexes that had been formed through noncovalent D/E interactions between fibrinogen D domains and fibrin E domains was examined. Two factor XIIIa-mediated cross-linking conditions were employed. In the first, fibrin/fibrinogen complexes were formed between (125)I-labeled fibrinogen 2 ("peak 2" fibrinogen), each heterodimeric molecule containing one gamma(A) and one larger gamma' chain, and nonlabeled fibrin 1 molecules ("peak 1" fibrin), each containing two gamma(A) chains. If DD-long cross-linking occurred, (125)I-labeled gamma(A)-gamma(A), gamma(A)-gamma', and gamma'-gamma'dimers in a 1:2:1 ratio would result. Transverse cross-linking would yield a 1:1 mixture of (125)I-labeled gamma(A)-gamma(A) and gamma(A)-gamma' dimers, without any gamma'-gamma' dimers. Autoradiographic analyses of reduced SDS-PAGE gels from protocol 1 revealed (125)I-labeled gamma(A)-gamma(A) and gamma(A)-gamma' dimers at a ratio of approximately 1:1. No labeled gamma'-gamma' dimers were detected. Protocol 2 used a converse mixture, (125)I-fibrin 2 and nonlabeled fibrinogen 1. DD-long cross-linking of this mixture would yield only nonradioactive gamma(A)-gamma(A) dimers, whereas transverse cross-linking would yield a 1:1 mixture of (125)I-labeled gamma(A)-gamma(A) and gamma(A)-gamma' dimers. Autoradiographic analyses of this mixture yielded (125)I-labeled gamma(A)-gamma(A) and gamma(A)-gamma' dimers in a 1:1 ratio. These findings provide no evidence that longitudinal (DD-long) gamma chain positioning occurs in cross-linked fibrin and indicate instead that most, if not all, gamma-chain positioning in an assembled fibrin polymer is transverse.     

Polypeptide involved in the Escherichia coli plasmid-mediated citrate transport system.

A genetic determinant conferring on Escherichia coli the ability to utilize citrate as a sole source of carbon and energy was subcloned into pBR322 from a naturally occurring, citrate utilization (Cit+) plasmid, pOH30221, and was localized to a 1.6-kilobase region by cloning and subsequent deletion analysis. Genetic expression of the Cit+ determinant in E. coli minicells revealed that the Cit+ determinant encoded a single, membrane-associated polypeptide with an apparent molecular weight of 35,000, as determined by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. This polypeptide seemed not to be synthesized as a precursor with an amino-terminal signal sequence.     

Localization of the domains of fibrin involved in binding to platelets

The molecular basis of platelet-fibrin interactions has been investigated by using synthetic peptides as potential inhibitors of fibrin protofibril and fibrinogen binding to ADP-stimulated platelets, adhesion of fibrin fibers to the platelet surface, and platelet-mediated clot retraction. Synthetic peptides of sequence RGDS and HHLGGAKQAGDV, corresponding to regions of the fibrinogen alpha- and gamma-chains previously identified as platelet recognition sites, inhibited the binding of radiolabelled soluble fibrin oligomers to ADP-stimulated platelets with IC50 values of 10 and 40 microM, respectively. Synthetic GPRP and GHRP, corresponding to the N-terminal tripeptide sequence of the fibrin alpha-chains and the tetrapeptide sequence of the beta-chains, respectively, were minimally effective in blocking soluble fibrin polymer binding to ADP-stimulated platelets. Platelet functions which are unique to the three-dimensional fibrin network were examined by measurements of the extent of adhesion of fluorophore-labelled fibrin to platelets with a microfluorimetric technique and by light scattering measurements of the time course of clot retraction. Inhibition of fibrin-platelet adhesion by RGDS, HHLGGAKQAGDV and GHRP exhibited a similar, linear dependence reaching 1/2 maximum at about 200 microM, suggesting nonspecific effects. GPRP inhibited fibrin assembly but did not appear to have specific effects on fibrin-platelet adhesion. Only RGDS effected clot retraction, causing a 4-6-fold decrease in rate at 230 microM. These results indicate that fibrinogen and fibrin protofibrils, which are obligatory intermediates on the fibrin assembly pathway, share a set of common platelet recognition sites located at specific regions of the alpha- and gamma-chains of the multinodular fibrin(ogen) molecules. The RGDS site is also involved in mediating interactions between the three-dimensional fibrin network and stimulated platelets.     

Polypeptide sequences involved in the cleavage of DNA by the restriction endonuclease EcoRI

We have prepared a variety of fragments of the restriction endonuclease EcoRI by partial or total CNBr or acid cleavage of the protein. These fragments were isolated by preparative polyacrylamide gel electrophoresis in the presence of sodium dodecyl sulfate. They were analyzed in a qualitative manner for phosphodiesterase activity. Antibodies against these fragments were elicited in rats and tested for binding to native EcoRI in an enzyme-linked immunoassay. We conclude from these experiments that the DNA binding site of EcoRI is located in the COOH-terminal half of the molecule, close to and probably comprising amino acid residues 137 to 157. This conclusion is reinforced by the observation that this sequence shows homology to the sequences of the recognition helix of other gene-regulatory proteins.     

Chromatography and electron microscopy of cross-linked fibrin polymers--a new model describing the cross-linking at the DD-trans contact of the fibrin molecules

Polymerization of fibrin molecules results in the formation of a double-stranded protofibril. Although convincing data have not been presented, it is classically believed that γ-chain cross-linking of fibrin molecules occurs between the longitudinal end-to-end contacts (DD-long contacts) of the molecules within each of the two strands of a protofibril (intrastrand cross-linking). In this investigation the question addressed was whether γ-chain cross-linking takes place across the two strands (interstrand cross-linking) between the transversal half-staggered contacts of the molecules. Demonstration of double-stranded protofibrils in the presence of urea would indicate an interstrand cross-linking, whereas in the case of intrastrand cross-linking, the chaotropic agent urea would dissociate the double-stranded structure to form single-stranded fibrils. Protofibrils were obtained by generating soluble cross-linked fibrin polymers (sXLFbP): After incubation of souble fibrin polymers with Factor XIIIa at 37°C, the polymerization and cross-linking reaction was stopped by the addition of 6M urea and EDTA. Gel filtration of the reaction mixture in the presence of 3M urea was effect in separating sXLFbP from monomeric molecules. The sXLFbP-containing fractions were adsorbed onto mica in the presence of different concentrations of urea and investigated by electron microscopy after rotary shadowing. In the presence of 3M urea the sXLFbP appeared as double-stranded protofibrils. In the presence of 4M urea some parts of the double-stranded structure were found to be unfolded whereas in the presence of 6M urea multiple-bended single-stranded fibrils were observed. SDS-polyacrylamide gel electrophoresis of the sXLFbP demonstrated no γ-chain cross-linking within the protofibrils. Ultracentrifugation of the sXLFbP showed that in the presence of 3M urea noncross-linked fibrin polymers dissociated to monomeric molecules. When sXLFbP was centrifuged into 6M urea on sucrose density gradients, no reduction of the polymer size could be observed. The data indicate that γ-chain cross-linking occurs between the transversal contacts of the fibrin molecules within a protofibril, thus generating interstrand cross-linking. A model of the cross-linking of polymerized fibrin molecules is developed and the term DD-trans contact is proposed for this specific alignment of the D-domains.