DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE – DNA polymerase core, β-clamp, and primase

Name
WID	DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE
Name	DNA polymerase core, β-clamp, and primase

Structure
Biosynthesis	[c]: DNA_POLYMERASE_CORE + (2) MG_001_MONOMER + MG_250_MONOMER ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE
No. subunits	3
DNA footprint	Length: 49 (nt), Binding: ssDNA, Region: xsDNA
Empirical formula (pH 7.5)	H₃₀₅₀₁C₁₉₄₇₀N₅₀₁₂O₅₆₂₃S₉₁
Molecular weight (pH 7.5; Da)	427674.41
Extinction coefficient (260 nm, 25C, pH 7.0)	152985.00
Half life (OD (600 nm) = 0.3, M9 media, 36C; min)	1200.00

Synthesis
Formation process	Process_Replication
Localization	c

Function
Reaction participant	DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 6mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_6MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_6MER_ATP[c] DNA bound protein release (apurinic endonuclease releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_235_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_235_MONOMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 5mer-(4)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_5MER_4ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_5MER_4ATP_ADP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DNA-directed RNA polymerase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + RNA_POLYMERASE[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + RNA_POLYMERASE[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_1MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_1MER_ATP[c] ... 34 more DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 2mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_2MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_2MER_ATP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DNA gyrase) DNA_GYRASE[d] + DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] ⇒ DNA_GYRASE[c] + DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] DNA bound protein release (uracil-DNA glycosylase, putative releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_097_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_097_MONOMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases type I restriction modification DNA specificity domain protein) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_438_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_438_MONOMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases adenine-specific DNA modification methylase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_184_DIMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_184_DIMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 3mer-(2)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_3MER_2ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_3MER_2ATP_ADP[c] DNA bound protein release (polI-like 5'-3' exonuclease, putative releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_262_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_262_MONOMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 3mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_3MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_3MER_ATP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_1MER_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_1MER_ADP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 5mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_5MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_5MER_ATP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases ferric uptake repressor) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_236_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_236_MONOMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases Uncharacterized HTH-type transcriptional regulator) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_101_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_101_MONOMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases heat-inducible transcription repressor HrcA, putative) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_205_DIMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_205_DIMER[c] DNA bound protein release (DNA polymerase III, beta subunit releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_001_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_001_MONOMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases topoisomerase IV) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_203_204_TETRAMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_203_204_TETRAMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 6mer-(5)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_6MER_5ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_6MER_5ATP_ADP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 4mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_4MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_4MER_ATP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DNA ligase, NAD-dependent) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_254_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_254_MONOMER[c] DNA bound protein release (Holliday junction DNA helicase releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_358_359_10MER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_358_359_10MER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases LuxR bacterial regulatory protein, putative) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_428_DIMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_428_DIMER[c] DNA bound protein release (DNA incision complex releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_073_206_421_TETRAMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_073_206_421_TETRAMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 4mer-(3)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_4MER_3ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_4MER_3ATP_ADP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases Chromosome Segregation Protein SMC with SCP Proteins-ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_213_214_298_6MER_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_213_214_298_6MER_ADP[c] DNA bound protein release (3-5' helicase releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_244_DIMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_244_DIMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 2mer-(1)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_2MER_1ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_2MER_1ATP_ADP[c] DNA bound protein release (recombination protein, strand exchange releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_339_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_339_MONOMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases single-strand binding protein family, octamer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_091_OCTAMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_091_OCTAMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases Spx subfamily protein) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_127_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_127_MONOMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DNA-directed RNA polymerase holoenzyme) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + RNA_POLYMERASE_HOLOENZYME[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + RNA_POLYMERASE_HOLOENZYME[c] DNA bound protein release (formamidopyrimidine-DNA glycosylase releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_498_MONOMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_498_MONOMER[d] DNA bound protein release (Holliday junction endonuclease releases DNA polymerase core, β-clamp, and primase) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_352_DIMER[c] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_352_DIMER[d] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA-ATP 7mer) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_7MER_ATP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_7MER_ATP[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DNA topoisomerase I) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_122_MONOMER[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_122_MONOMER[c] DNA bound protein release (DNA polymerase core, β-clamp, and primase releases DnaA 7mer-(6)ATP-(1)ADP) DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[c] + MG_469_7MER_6ATP_ADP[d] ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE[d] + MG_469_7MER_6ATP_ADP[c]
Complex subunit	DNA polymerase core, β-clamp, and primase [c]: DNA_POLYMERASE_CORE + (2) MG_001_MONOMER + MG_250_MONOMER ⇒ DNA_POLYMERASE_CORE_BETA_CLAMP_PRIMASE

Parameters
Parameters	Parameter_0110: laggingBackupClampReloadingLength = 750 nt Parameter_0112: okazakiFragmentMeanLength = 1500 nt Parameter_0115: startingOkazakiLoopLength = 50 nt Parameter_0145: rnaPolymeraseCollisionMeanDwellTime = 1.7 s

Comments
Comments	Used on lagging strand to associate DNA polymerase core, β-clamp, and primase.

Metadata
Created	2012-10-01 15:07:36
Last updated	2012-10-01 15:14:01