title: RPA subunit arrangement near the 3'-end of the primer is modulated by the length of the template strand and cooperative protein interactions.
abstract: To analyze the interaction of human replication protein A (RPA) and its subunits with the DNA template-primer junction in the DNA replication fork, we designed several template-primer systems differing in the size of the single-stranded template tail (4, 9, 13, 14, 19 and 31 nt). Base substituted photoreactive dNTP analogs-5-[ N -(2-nitro-5-azidobenzoyl)- trans -3-amino-propenyl-1]-2'-deoxyuridine-5'-triphosphate (NAB-4-dUTP) and 5-[ N -[ N -(2-nitro-5-azidobenzoyl)glycyl]- trans -3-aminopropenyl-1]-2'-deoxyuridine-5'-triphosphate (NAB-7-dUTP)-were used as substrates for elongation of radiolabeled primer-template by DNA polymerases in the presence or absence of RPA. Subsequent UV crosslinking showed that the pattern of p32 and p70 RPA subunit labeling, and consequently their interaction with the template-primer junction, is strongly dependent on the template extension length at a particular RPA concentration, as well as on the ratio of RPA to template concentration. Our results suggest a model of changes in the RPA configuration modulating by the length of the template extension in the course of nascent DNA synthesis.
authors.affiliation: Novosibirsk Institute of Bioorganic Chemistry Siberian Division of Russian Academy of Sciences, Prospect Lavrentiev 8, 630090 Novosibirsk, Russia. lavrik@niboch.nsc.ru
authors.forename: O I
authors.initials: OI
authors.lastname: Lavrik
authors.forename: D M
authors.initials: DM
authors.lastname: Kolpashchikov
authors.forename: K
authors.initials: K
authors.lastname: Weisshart
authors.forename: H P
authors.initials: HP
authors.lastname: Nasheuer
authors.forename: S N
authors.initials: SN
authors.lastname: Khodyreva
authors.forename: A
authors.initials: A
authors.lastname: Favre
mesh_terms: D001386:Azides / Q000737:chemistry / Q000378:metabolism; D003432:Cross-Linking Reagents / Q000737:chemistry / Q000378:metabolism; D004247:DNA / Q000096:biosynthesis; D004265:DNA Helicases / Q000737:chemistry / Q000378:metabolism; D004256:DNA Polymerase I / Q000378:metabolism; D019951:DNA Polymerase beta / Q000378:metabolism; D017931:DNA Primers / Q000235:genetics / Q000378:metabolism*; D004261:DNA Replication / Q000235:genetics*; D004277:DNA, Single-Stranded / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D004268:DNA-Binding Proteins / Q000737:chemistry* / Q000378:metabolism*; D004926:Escherichia coli / Q000201:enzymology; D006801:Humans; D008954:Models, Biological; D008970:Molecular Weight; D011485:Protein Binding; D011487:Protein Conformation; D051716:Replication Protein A; D013698:Templates, Genetic; D014466:Ultraviolet Rays; D014544:Uridine Triphosphate / Q000031:analogs & derivatives / Q000737:chemistry / Q000378:metabolism
chemical_list: C110508:5-(N-(2-nitro-5-azidobenzoyl)-3-aminopropen-1-yl)deoxyuridine-5'-triphosphate; D001386:Azides; D003432:Cross-Linking Reagents; D017931:DNA Primers; D004277:DNA, Single-Stranded; D004268:DNA-Binding Proteins; C497167:RPA1 protein, human; D051716:Replication Protein A; D004247:DNA; D004256:DNA Polymerase I; D019951:DNA Polymerase beta; D004265:DNA Helicases; D014544:Uridine Triphosphate