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Literature summary for 3.6.4.B8 extracted from

  • Perumal, S.K.; Xu, X.; Yan, C.; Ivanov, I.; Benkovic, S.J.
    Recognition of a key anchor residue by a conserved hydrophobic pocket ensures subunit interface integrity in DNA clamps (2019), J. Mol. Biol., 431, 2493-2510 .
    View publication on PubMedView publication on EuropePMC
Search for more literature for 3.6.4.B8

Activating Compound

Activating Compound Comment Organism Structure
additional information clamp substrate PCNA proteins are assayed for stimulation of the ATPase activity of the RFC clamp loader complex in the presence of DNA Homo sapiens

Cloned(Commentary)

Cloned (Comment) Organism
recombinant expression of replication factor C subunits 2, 3, 4, and 5 with mutated truncated subunit RFC1 Homo sapiens

Protein Variants

Protein Variants Comment Organism
additional information deletion of its N-terminal DNA binding domain does not affect the activity of the wild-type RFC complex, leading to generate a truncated RFC1DELTA555 construct, that is easier to purify in the RFC pentamer Homo sapiens

Metals/Ions

Metals/Ions Comment Organism Structure
Mg2+ required Homo sapiens

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
ATP + H2O Homo sapiens
-
 ADP + phosphate
-
 ?
additional information Homo sapiens loading of human DNA sliding clamp PCNA (proliferating cell nuclear antigen) by the clamp loader complex RFC ?
-
-

Organism

Organism UniProt Comment Textmining
Homo sapiens P35251 AND P35250 AND P40938 AND P35249 AND P40937 subunits 1 to 5
-

Purification (Commentary)

Purification (Comment) Organism
recombinant replication factor C subunits RFC2, 3, 4, and 5 with mutated truncated subunit RFC1 Homo sapiens

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
ATP + H2O
-
 Homo sapiens ADP + phosphate
-
 ?
additional information loading of human DNA sliding clamp PCNA (proliferating cell nuclear antigen) by the clamp loader complex RFC Homo sapiens ?
-
-
additional information solution dynamics of the substrate human clamp protein in proliferating cell nuclear antigen (PCNA). Computational modeling (molecular dynamic simulations and MM/GBSA binding energy decomposition analyses) is used to identify conserved networks of hydrophobic residues critical for clamp stability and ring-opening dynamics, subunit interface dynamics, substrate structure, detailed overview Homo sapiens ?
-
-

Subunits

Subunits Comment Organism
pentamer 5 RFC subunits 1-5 Homo sapiens

Synonyms

Synonyms Comment Organism
ATP-dependent clamp loader complex
-
 Homo sapiens
clamp loader complex
-
 Homo sapiens
replication factor C
-
 Homo sapiens
RFC
-
 Homo sapiens
RFC clamp loader complex
-
 Homo sapiens

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
7.8
-
 assay at Homo sapiens

General Information

General Information Comment Organism
physiological function sliding clamp proteins encircle duplex DNA and are involved in processive DNA replication and the DNA damage response. Clamp proteins are ring-shaped oligomers (dimers or trimers) and are loaded onto DNA by an ATP-dependent clamp loader complex that ruptures the interface between two adjacent subunits. The hydrophobic network is shared among clamp proteins and exhibits a key in a keyhole pattern where a bulky aromatic residue from one clamp subunit is anchored into a hydrophobic pocket of the opposing subunit. Bioinformatics and dynamic network analyses show that this oligomeric latch is conserved across DNA sliding clamps from all domains of life and dictates the dynamics of clamp opening and closing Homo sapiens