2026-10-07 REL RCSB INITIAL_RELEASE REPOSITORY RCSB RCSB 2026-05-19 2026-10-07 2026-10-07 2026-10-07 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) NIH GM131832 United States Raw Consensus map of the Strand-Displacement Complex of Human Mitochondrial DNA Polymerase Gamma Nayak AR Sokolova VO Temiakov D Mitochondrial DNA Polymerase Gamma, PolG, DNA strand displacement, REPLICATION Sokolova V Buchel G Strock S Nayak AR Temiakov D Molecular and structural basis for replication initiation and strand separation by human mitochondrial DNA polymerase gamma. Nucleic Acids Res. UK 54 2026 42788360 doi:10.1093/nar/gkag925 1362-4962 0389 NARHAD EMD-76732 other EM volume
composite map
 EMDB EMD-76732 other EM volume
composite map
 EMDB EMD-77233 associated EM volume Strand displacement Complex of Human Mitochondrial DNA Polymerase Gamma Strand displacement Complex of Human Mitochondrial DNA Polymerase Gamma 0 1 2 3 4
Strand-displacement complex of human mitochondrial DNA polymerase Gamma (exo-), assembled on a 1-nt gapped primer-template substrate contiguous with a downstream duplex containing a 4-nt 5' non-template flap ss-DNA. The primer terminus was extended by four nucleotides (three dG followed by a chain-terminating ddT), thereby promoting coordinated displacement of four non-template nucleotides from the downstream DNA duplex. The ternary catalytic complex is stabilized by a bound incoming nucleotide (dATP) at the polymerase active site in the presence of 5 mM MgCl2.
Homo sapiens 0.362 DNA polymerase subunit gamma-1 Homo sapiens
Catalytic Subunit
Spodoptera frugiperda LEVO MSRLLWRKVAGATVGPGPVPAPGRWVSSSVPASDPSDGQRRRQQQQQQQQQQQQQPQQPQVLSSEGGQLRHNPLDIQMLS RGLHEQIFGQGGEMPGEAAVRRSVEHLQKHGLWGQPAVPLPDVELRLPPLYGDNLDQHFRLLAQKQSLPYLEAANLLLQA QLPPKPPAWAWAEGWTRYGPEGEAVPVAIPEERALVFDVEVCLAEGTCPTLAVAISPSAWYSWCSQRLVEERYSWTSQLS PADLIPLEVPTGASSPTQRDWQEQLVVGHNVSFDRAHIREQYLIQGSRMRFLDTMSMHMAISGLSSFQRSLWIAAKQGKH KVQPPTKQGQKSQRKARRGPAISSWDWLDISSVNSLAEVHRLYVGGPPLEKEPRELFVKGTMKDIRENFQDLMQYCAQDV WATHEVFQQQLPLFLERCPHPVTLAGMLEMGVSYLPVNQNWERYLAEAQGTYEELQREMKKSLMDLANDACQLLSGERYK EDPWLWDLEWDLQEFKQKKAKKVKKEPATASKLPIEGAGAPGDPMDQEDLGPCSEEEEFQQDVMARACLQKLKGTTELLP KRPQHLPGHPGWYRKLCPRLDDPAWTPGPSLLSLQMRVTPKLMALTWDGFPLHYSERHGWGYLVPGRRDNLAKLPTGTTL ESAGVVCPYRAIESLYRKHCLEQGKQQLMPQEAGLAEEFLLTDNSAIWQTVEELDYLEVEAEAKMENLRAAVPGQPLALT ARGGPKDTQPSYHHGNGPYNDVDIPGCWFFKLPHKDGNSCNVGSPFAKDFLPKMEDGTLQAGPGGASGPRALEINKMISF WRNAHKRISSQMVVWLPRSALPRAVIRHPDYDEEGLYGAILPQVVTAGTITRRAVEPTWLTASNARPDRVGSELKAMVQA PPGYTLVGADVDSQELWIAAVLGDAHFAGMHGCTAFGWMTLQGRKSRGTDLHSKTATTVGISREHAKIFNYGRIYGAGQP FAERLLMQFNHRLTQQEAAEKAQQMYAATKGLRWYRLSDEGEWLVRELNLPVDRTEGGWISLQDLRKVQRETARKSQWKK WEVVAERAWKGGTESEMFNKLESIATSDIPRTPVLGCCISRALEPSAVQEEFMTSRVNWVVQSSAVDYLHLMLVAMKWLF EEFAIDGRFCISIHDEVRYLVREEDRYRAALALQITNLLTRCMFAYKLGLNDLPQSVAFFSAVDIDRCLRKEVTMDCKTP SNPTGMERRYGIPQGEALDIYQIIELTKGSLEKRSQPGP P54098 2.7.7.7 DNA polymerase subunit gamma-2, mitochondrial Homo sapiens
Homodimer of Accessory Subunit
Escherichia coli LEVO MRSRVAVRACHKVCRCLLSGFGGRVDAGQPELLTERSSPKGGHVKSHAELEGNGEHPEAPGSGEGSEALLEICQRRHFLS GSKQQLSRDSLLSGCHPGFGPLGVELRKNLAAEWWTSVVVFREQVFPVDALHHKPGPLLPGDSAFRLVSAETLREILQDK ELSKEQLVAFLENVLKTSGKLRENLLHGALEHYVNCLDLVNKRLPYGLAQIGVCFHPVFDTKQIRNGVKSIGEKTEASLV WFTPPRTSNQWLDFWLRHRLQWWRKFAMSPSNFSSSDCQDEEGRKGNKLYYNFPWGKELIETLWNLGDHELLHMYPGNVS KLHGRDGRKNVVPCVLSVNGDLDRGMLAYLYDSFQLTENSFTRKKNLHRKVLKLHPCLAPIKVALDVGRGPTLELRQVCQ GLFNELLENGISVWPGYLETMQSSLEQLYSKYDEMSILFTVLVTETTLENGLIHLRSRDTTMKEMMHISKLKDFLIKYIS SAKNV Q9UHN1 2.7.7.7 primer DNA synthetic construct (DC)(DA)(DG)(DT)(DC)(DT)(DG)(DC)(DG)(DG)(DC)(DG)(DC)(DG)(DC)(DG)(DG)(DG)(DT) DNA Template DNA synthetic construct (DC)(DG)(DA)(DC)(DT)(DA)(DC)(DC)(DC)(DG)(DC)(DG)(DC)(DG)(DC)(DC)(DG)(DC)(DA)(DG) (DA)(DC)(DT)(DG) DNA singleParticle particle 0.52 7.9
10 mM Tris-Hcl pH 7.9, 100 mM Nacl, 10 mM DTT, and 5 mM MgCl2
 UltrAuFoil R1.2/1.3 GOLD GLOW DISCHARGE AIR ETHANE 100 277 FEI VITROBOT MARK IV
2 uM strand-displacement complex of human mitochondrial DNA polymerase Gamma (exo-), assembled on an equimolar 1-nt gapped primer-template substrate contiguous with a downstream duplex containing a 4-nt single-stranded non-template flap. The primer was extended by four nucleotides; three successive dG at 0.2 mM, followed by incorporation of a chain-terminating ddT at 0.1 mM), thereby driving coordinated displacement of four nucleotides from the downstream DNA duplex. The resulting ternary catalytic complex was further stabilized by binding of an incoming nucleotide (1 mM dATP) at the polymerase active site in the presence of 5 mM MgCl2.
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 2.7 0.5 1.5 105000.0 NITROGEN 20 Latitude GATAN K3 (6k x 4k) 1 7236 2.6 60.0 1 5827907 cryoSPARC 4.6 PHASE FLIPPING AND AMPLITUDE CORRECTION
Ab-initio reconstruction in cryoSPARC
 1 C1 2.93 FSC 0.143 CUT-OFF cryoSPARC 4.6 395220 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD 4 cryoSPARC 4.6 emd_77233.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 324 324 324 0 0 0 324 324 324 277.2144 277.2144 277.2144 90.0 90.0 90.0 X Y Z -0.06870916 0.15329011 0.000007716585 0.0040567135 0.85559994 0.85559994 0.85559994 0.0277 AUTHOR consensus full map 9PCK PDB experimental model FLEXIBLE FIT Coot 0.9.8.5 REAL emd_77233_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 324 324 324 0 0 0 324 324 324 277.2144 277.2144 277.2144 90.0 90.0 90.0 X Y Z -0.097371325 1.2459325 0.0025535373 0.032849416 0.85559994 0.85559994 0.85559994 AUTHOR Sharp full map emd_77233_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 324 324 324 0 0 0 324 324 324 277.2144 277.2144 277.2144 90.0 90.0 90.0 X Y Z -0.09074784 0.1725517 0.00012258091 0.0074923877 0.85559994 0.85559994 0.85559994 AUTHOR Half-B map emd_77233_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 324 324 324 0 0 0 324 324 324 277.2144 277.2144 277.2144 90.0 90.0 90.0 X Y Z -0.087848775 0.18690704 0.0001223796 0.0075032734 0.85559994 0.85559994 0.85559994 AUTHOR Half-A map