2024-02-21 REL RCSB RCSB RCSB 2022-02-21 2022-07-06 2022-07-06 2024-02-21 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01-GM127776 United States Swiss National Science Foundation 168972 Switzerland Swiss National Science Foundation 177859 Switzerland RFC:PCNA bound to DNA with a ssDNA gap of five nucleotides Liu X Gaubitz C sliding clamp, DNA replication&repair, AAA+, clamp loader, BRCT domain, REPLICATION, REPLICATION-DNA complex Liu X Gaubitz C Pajak J Kelch BA A second DNA binding site on RFC facilitates clamp loading at gapped or nicked DNA. Elife US 11 2022 35731107 doi:10.7554/eLife.77483 2050-084X EMD-25616 other EM volume EMD-25617 other EM volume EMD-26298 other EM volume 7u1p FULLOVERLAP RFC bound to PCNA and DNA with a ssDNA gap of five nucleotides RFC bound to PCNA and DNA with a ssDNA gap of five nucleotides 0 1 2 3 4 5 6 7 8 9 Saccharomyces cerevisiae 0.364 Replication factor C subunit 1 Saccharomyces cerevisiae 0.095048195 1 Escherichia coli LEVO MVNISDFFGKNKKSVRSSTSRPTRQVGSSKPEVIDLDTESDQESTNKTPKKMPVSNVIDVSETPEGEKKLPLPAKRKASS PTVKPASSKKTKPSSKSSDSASNITAQDVLDKIPSLDLSNVHVKENAKFDFKSANSNADPDEIVSEIGSFPEGKPNCLLG LTIVFTGVLPTLERGASEALAKRYGARVTKSISSKTSVVVLGDEAGPKKLEKIKQLKIKAIDEEGFKQLIAGMPAEGGDG EAAEKARRKLEEQHNIATKEAELLVKKEEERSKKLAATRVSGGHLERDNVVREEDKLWTVKYAPTNLQQVCGNKGSVMKL KNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMS VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDA NSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLD GQIYSDIGSRNFTLNDKIALYFDDFDFTPLMIQENYLSTRPSVLKPGQSHLEAVAEAANCISLGDIVEKKIRSSEQLWSL LPLHAVLSSVYPASKVAGHMAGRINFTAWLGQNSKSAKYYRLLQEIHYHTRLGTSTDKIGLRLDYLPTFRKRLLDPFLKQ GADAISSVIEVMDDYYLTKEDWDSIMEFFVGPDVTTAIIKKIPATVKSGFTRKYNSMTHPVAIYRTGSTIGGGGVGTSTS TPDFEDVVDADDNPVPADDEETQDSSTDLKKDKLIKQKAKPTKRKTATSKPGGSKKRKTKA P38630 Replication factor C subunit 4 Saccharomyces cerevisiae 0.036201039 1 Escherichia coli LEVO MSKTLSLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA SDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSRCAI LRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKML LASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLASMLAKIHKLN NKA P40339 Replication factor C subunit 3 Saccharomyces cerevisiae 0.038254542999999995 1 Escherichia coli LEVO MSTSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVL ELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSR CTRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPR PSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQG SAVIGAIKASFENETVKANV P38629 Replication factor C subunit 2 Saccharomyces cerevisiae 0.039794473 1 Escherichia coli LEVO MFEGFGPNKKRKISKLAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTK ELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETY SGVTRFCLICNYVTRIIDPLASRCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASK GAQYLGDGKNITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKN QISWLLFTTDSRLNNGTNEHIQLLNLLVKISQL P40348 Replication factor C subunit 5 Saccharomyces cerevisiae 0.039993582 1 Escherichia coli LEVO MSLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASN RKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEK YSKNIRLIMVCDSMSPIIAPIKSRCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESM ALNNELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKSS IIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCLD P38251 Proliferating cell nuclear antigen Saccharomyces cerevisiae 0.029525713 3 Escherichia coli LEVO GPHMASMLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTS LSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQL SDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAP ALFQFDLKSGFLQFFLAPKFNDEE P15873 DNA - Primer synthetic construct 0.0077339869999999995 1 (DG)(DG)(DG)(DA)(DC)(DG)(DC)(DA)(DC)(DG)(DC)(DG)(DG)(DC)(DA)(DT)(DT)(DC)(DA)(DA) (DG)(DG)(DA)(DC)(DT) DNA DNA - Template synthetic construct 0.015417887 1 (DT)(DT)(DG)(DT)(DG)(DG)(DG)(DT)(DA)(DG)(DA)(DT)(DA)(DA)(DA)(DT)(DA)(DC)(DA)(DG) (DA)(DC)(DC)(DT)(DA)(DA)(DG)(DT)(DC)(DC)(DT)(DT)(DG)(DA)(DA)(DT)(DG)(DC)(DC)(DG) (DC)(DG)(DT)(DG)(DC)(DG)(DT)(DC)(DC)(DC) DNA DNA - non primer synthetic construct 0.006027929 1 (DC)(DT)(DG)(DT)(DA)(DT)(DT)(DT)(DA)(DT)(DC)(DT)(DA)(DC)(DC)(DC)(DA)(DC)(DA)(DA) DNA PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER 0.0005232469999999999 3 AGS MAGNESIUM ION 2.4305e-05 4 MG ADENOSINE-5'-DIPHOSPHATE 0.000427201 2 ADP singleParticle particle 7.5 ETHANE TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 2.2 GATAN K3 (6k x 4k) 1 47.7381 1 1098517 EMD-25617
reference for the 3D classification, downfiltered
 C1 3.0 FSC 0.143 CUT-OFF RELION 3.1 271745 RANDOM ASSIGNMENT RELION MAXIMUM LIKELIHOOD RELION RELION emd_26302.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 169 180 205 76 73 80 205 180 169 170.15 149.4 140.27 90.0 90.0 90.0 Z Y X -10.557765 21.505693000000001 0.000000000016276 1.0 0.83 0.83 0.83000004 1.0 AUTHOR Density modified map FLEXIBLE FIT REAL emd_26302_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 265.6 265.6 265.6 90.0 90.0 90.0 X Y Z -0.0053756568 0.07200346 0.00043831574 0.0047165705 0.83000004 0.83000004 0.83000004 AUTHOR emd_26302_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 265.6 265.6 265.6 90.0 90.0 90.0 X Y Z -0.010139773 0.07722995 0.00043573 0.004837266 0.83000004 0.83000004 0.83000004 AUTHOR emd_26302_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 265.6 265.6 265.6 90.0 90.0 90.0 X Y Z -0.0099280095 0.07806366 0.00044082233 0.0048366473 0.83000004 0.83000004 0.83000004 AUTHOR