2026-09-02 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY STRUCTURE_SUMMARY em_admin entity _em_admin.last_update _entity.formula_weight DATABASE_REFERENCES citation em_admin pdbx_database_proc pdbx_seq_map_depositor_info _citation.journal_volume _citation.page_first _citation.page_last _em_admin.last_update _pdbx_seq_map_depositor_info.one_letter_code _pdbx_seq_map_depositor_info.one_letter_code_mod STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond em_3d_fitting_list em_admin pdbx_entry_details pdbx_initial_refinement_model pdbx_modification_feature pdbx_validate_chiral _em_3d_fitting_list.accession_code _em_3d_fitting_list.initial_refinement_model_id _em_3d_fitting_list.source_name _em_3d_fitting_list.type _em_admin.last_update _pdbx_entry_details.has_protein_modification REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp chem_comp_atom chem_comp_bond em_admin entity pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order pdbx_validate_chiral _chem_comp.formula _chem_comp.formula_weight _em_admin.last_update _entity.formula_weight PDBe PDBe 2021-04-01 2021-10-13 2021-10-13 2026-09-02 H2020 Marie Curie Actions of the European Commission 754411 Austria Murine supercomplex CIII2CIV in the intermediate locked conformation Vercellino I Sazanov LA mitochondria, respiratory chain, supercomplex, OXIDOREDUCTASE, complex III, complex IV, MEMBRANE PROTEIN Vercellino I Sazanov LA Structure and assembly of the mammalian mitochondrial supercomplex CIII 2 CIV. Nature UK 598 364 367 2021 34616041 doi:10.1038/s41586-021-03927-z 1476-4687 0006 NATUAS 7o3e FULLOVERLAP PDB 7O37 unspecified
Full murine supercomplex CIII2CIV in the locked conformation
 PDB 7O3C unspecified
Full murine supercomplex CIII2CIV in the unlocked conformation
 EMDB EMD-12705 associated EM volume
Intermediate murine supercomplex CIII2CIV in the locked conformation
 Murine intermediate supercomplex CIII2CIV in the locked conformation Murine intermediate supercomplex CIII2CIV in the locked conformation 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23
Dimer of Complex III (assembly intermediate), monomer of complex IV, bridged by SCAF1
Mus musculus CD1 heart cardiac muscle mitochondria inner mitochondrial membrane 0.65 Cytochrome b-c1 complex subunit 1, mitochondrial Mus musculus heart 0.049355301 2 LEVO TATFAQALQSVPETQVSILDNGLRVASEQSSHATCTVGVWIDAGSRYETEKNNGAGYFLEHLAFKGTKNRPGNALEKEVE SIGAHLNAYSTREHTAYLIKALSKDLPKVVELLADIVQNSSLEDSQIEKERDVILREMQENDASMQNVVFDYLHATAFQG TPLAQAVEGPSENVRRLSRTDLTDYLNRHYKAPRMVLAAAGGVEHQQLLDLAQKHLSSVSRVYEEDAVPGLTPCRFTGSE IRHRDDALPLAHVAIAVEGPGWANPDNVTLQVANAIIGHYDCTYGGGVHLSSPLASVAVANKLCQSFQTFNISYSDTGLL GAHFVCDAMSIDDMVFFLQGQWMRLCTSATESEVTRGKNILRNALVSHLDGTTPVCEDIGRSLLTYGRRIPLAEWESRIQ EVDAQMLRDICSKYFYDQCPAVAGYGPIEQLPDYNRIRSGMFWLRF Q9CZ13 Cytochrome b-c1 complex subunit 2, mitochondrial Mus musculus heart 0.046641773 2 LEVO SLKVAPKVKTSAAPGGVPLQPQDLEFTKLPNGLVIASLENYAPLSRIGLFVKAGSRYEDSNNLGTSHLLRLASSLTTKGA SSFKITRGIEAVGGKLSVTATRENMAYTVEGIRSDIEILMEFLLNVTTAPEFRRWEVAALRSQLKIDKAVAFQNSQTRII ENLHDVAYKNALANPLYCPDYRMGKITSEELHYFVQNHFTSARMALVGLGVSHSVLKQVAEQFLNMRGGLGLAGAKAKYR GGEIREQNGDNLVHAAIVAESAAIGNAEANAFSVLQHLLGAGPHIKRGNNTTSLLSQSVAKGSHQPFDVSAFNASYSDSG LFGIYTISQAAAAGEVINAAYNQVKAVAQGNLSSADVQAAKNKLKAGYLMSVETSEGFLSEIGSQALAAGSYMPPSTVLQ QIDSVADADVVKAAKKFVSGKKSMAASGNLGHTPFLDEL Q9DB77 Cytochrome b Mus musculus heart 0.043240305 2 LEVO MTNMRKTHPLFKIINHSFIDLPAPSNISSWWNFGSLLGVCLMVQIITGLFLAMHYTSDTMTAFSSVTHICRDVNYGWLIR YMHANGASMFFICLFLHVGRGLYYGSYTFMETWNIGVLLLFAVMATAFMGYVLPWGQMSFWGATVITNLLSAIPYIGTTL VEWIWGGFSVDKATLTRFFAFHFILPFIIAALAIVHLLFLHETGSNNPTGLNSDADKIPFHPYYTIKDILGILIMFLILM TLVLFFPDMLGDPDNYMPANPLNTPPHIKPEWYFLFAYAILRSIPNKLGGVLALILSILILALMPFLHTSKQRSLMFRPI TQILYWILVANLLILTWIGGQPVEHPFIIIGQLASISYFSIILILMPISGIIEDKMLKLYP P00158 Cytochrome c1, heme protein, mitochondrial Mus musculus heart 0.027312187999999998 2 LEVO SDLELHPPSYPWSHRGLLSSLDHTSIRRGFQVYKQVCSSCHSMDYVAYRHLVGVCYTEEEAKALAEEVEVQDGPNDDGEM FMRPGKLSDYFPKPYPNPEAARAANNGALPPDLSYIVRARHGGEDYVFSLLTGYCEPPTGVSLREGLYFNPYFPGQAIGM APPIYTEVLEYDDGTPATMSQVAKDVATFLRWASEPEHDHRKRMGLKMLLMMGLLLPLTYAMKRHKWSVLKSRKLAYRPP K Q9D0M3 7.1.1.8 Cytochrome b-c1 complex subunit 7 Mus musculus heart 0.013456336 2 LEVO AGRSAVSASSKWLDGFRKWYYNAAGFNKLGLMRDDTLHETEDVKEAIRRLPEDLYNDRMFRIKRALDLTMRHQILPKDQW TKYEEDKFYLEPYLKEVIRERKEREEWAKK Q9CQB4 Cytochrome b-c1 complex subunit 8 Mus musculus heart 0.009652050999999998 2 LEVO GREFGNLARIRHVISYSLSPFEQRAFPSYFSKGIPNVLRRTRERILRVAPPFVVVYLIYTWGNQEFEQSKRKNPAMYEND K Q9CQ69 Cytochrome b-c1 complex subunit 6, mitochondrial Mus musculus heart 0.009002014999999999 2 LEVO GDPKEEEEEELVDPLTTVREHCEQLEKCVKARERLELCDNRVSSRSQTEEDCTEELFDFLHARDHCVAHKLFKNLK P99028 Cytochrome b-c1 complex subunit Rieske, mitochondrial Mus musculus heart 0.021524398 1 LEVO SHTDVKVPDFSDYRRAEVLDSTKSSKESSEARKGFSYLVTATTTVGVAYAAKNVVSQFVSSMSASADVLAMSKIEIKLSD IPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLDRVKKPEWVILIGVCTHLGCVPIANAGDFGGYYCPC HGSHYDASGRIRKGPAPLNLEVPAYEFTSDDVVVVG Q9CR68 7.1.1.8 Cytochrome b-c1 complex subunit 9 Mus musculus heart 0.007900234 1 LEVO MLSVAARSGPFAPVLSATSRGVAGALRPLLQGAVPAASEPPVLDVKRPFLCRESLSGQAAARPLVATVGLNVPASVRF Q9CR68 Cox7a2l protein Mus musculus heart 0.012575580999999999 1 LEVO MYYKFSSFTQKLAGAWASEAYTPQGLKPVSTEAPPIIFATPTKLTSSVTAYDYSGKNKVPELQKFFQKADGVPIHLKRGL PDQMLYRTTMALTLGGTIYCLIALYMASQPRNK Q99KD6 Cytochrome c oxidase subunit 1 Mus musculus heart 0.056945641 1 LEVO MFINRWLFSTNHKDIGTLYLLFGAWAGMVGTALSILIRAELGQPGALLGDDQIYNVIVTAHAFVMIFFMVMPMMIGGFGN WLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILG AINFITTIINMKPPAMTQYQTPLFVWSVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGH PEVYILILPGFGIISHVVTYYSGKKEPFGYMGMVWAMMSIGFLGFIVWAHHMFTVGLDVDTRAYFTSATMIIAIPTGVKV FSWLATLHGGNIKWSPAMLWALGFIFLFTVGGLTGIVLSNSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAGFVHWFPLF SGFTLDDTWAKAHFAIMFVGVNMTFFPQHFLGLSGMPRRYSDYPDAYTTWNTVSSMGSFISLTAVLIMIFMIWEAFASKR EVMSVSYASTNLEWLHGCPPPYHTFEEPTYVKVK P00397 7.1.1.9 Cytochrome c oxidase subunit 2 Mus musculus heart 0.025993317999999998 1 LEVO MAYPFQLGLQDATSPIMEELMNFHDHTLMIVFLISSLVLYIISLMLTTKLTHTSTMDAQEVETIWTILPAVILIMIALPS LRILYMMDEINNPVLTVKTMGHQWYWSYEYTDYEDLCFDSYMIPTNDLKPGELRLLEVDNRVVLPMELPIRMLISSEDVL HSWAVPSLGLKTDAIPGRLNQATVTSNRPGLFYGQCSEICGSNHSFMPIVLEMVPLKYFENWSASMI P00405 7.1.1.9 Cytochrome c oxidase subunit 3 Mus musculus heart 0.029948688999999997 1 LEVO MTHQTHAYHMVNPSPWPLTGAFSALLLTSGLVMWFHYNSITLLTLGLLTNILTMYQWWRDVIREGTYQGHHTPIVQKGLR YGMILFIVSEVFFFAGFFWAFYHSSLVPTHDLGGCWPPTGISPLNPLEVPLLNTSVLLASGVSITWAHHSLMEGKRNHMN QALLITIMLGLYFTILQASEYFETSFSISDGIYGSTFFMATGFHGLHVIIGSTFLIVCLLRQLKFHFTSKHHFGFEAAAW YWHFVDVVWLFLYVSIYWWGS P00416 7.1.1.9 Cytochrome c oxidase subunit 4 isoform 1, mitochondrial Mus musculus heart 0.017225596 1 LEVO AHGSVVKSEDYAFPTYADRRDYPLPDVAHVTMLSASQKALKEKEKADWSSLSRDEKVQLYRIQFNESFAEMNRGTNEWKT VVGMAMFFIGFTALVLIWEKSYVYGPIPHTFDRDWVAMQTKRMLDMKANPIQGFSAKWDYDKNEWKK P19783 Cytochrome c oxidase subunit 5A, mitochondrial Mus musculus heart 0.012453081 1 LEVO SHGSHETDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKE IYPYVIQELRPTLNELGISTPEELGLDKV P12787 Cytochrome c oxidase subunit 5B, mitochondrial Mus musculus heart 0.010862376 1 LEVO MASGGGVPTDEEQATGLEREIMIAAQKGLDPYNMLPPKAASGTKEDPNLVPSISNKRIVGCICEEDNCTVIWFWLHKGES QRCPNCGTHYKLVPHQMAH P19536 Cytochrome c oxidase subunit 6A2, mitochondrial Mus musculus heart 0.009437691 1 LEVO ASAAKGDHGGAGANTWRLLTFVLALPGVALCSLNCWMHAGHHERPEFIPYHHLRIRTKPFAWGDGNHTLFHNPHVNPLPT GYEHP P43023 Cytochrome c oxidase subunit 6B1 Mus musculus heart 0.00995527 1 LEVO AEDIKTKIKNYKTAPFDSRFPNQNQTKNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPVSWVSAWDDRIAEGT FPGKI P56391 Cytochrome c oxidase subunit 6C Mus musculus heart 0.008352825 1 LEVO SSGALLPKPQMRGLLAKRLRVHIAGAFIVALGVAAAYKFGVAEPRKKAYAEFYRNYDSMKDFEEMRKAGIFQSAK Q9CPQ1 Cytochrome c oxidase subunit 7B, mitochondrial Mus musculus heart 0.006317091 1 LEVO SHQKRAPSFHDKYGNAILAGGAIFCVSTWTYTATQIGIEWNMSPVGRVTPKEWRDQ P56393 Cytochrome c oxidase subunit 7C, mitochondrial Mus musculus heart 0.005451368999999999 1 LEVO SHYEEGPGKNLPFSVENKWRLLAMMTVYFGSGFAAPFFIVRHQLLKK P17665 Cytochrome c oxidase subunit 8B, mitochondrial Mus musculus heart 0.004660409999999999 1 LEVO VSAKPAKTPTSAVEQAVGISAIVVGFMVPAGWVLAHLESYKKSSAA P48772 Cytochrome b-c1 complex subunit 9 Mus musculus heart 0.00732633 2 LEVO SSPTIPSRLYSLLFRRTSTFALTIAVGALFFERAFDQGADAIYEHINEGKLWKHIKHKYENKE Q8R1I1 PROTOPORPHYRIN IX CONTAINING FE 0.000616487 4 HEM 1,2-Distearoyl-sn-glycerophosphoethanolamine 0.000748065 13 3PE CARDIOLIPIN 0.0014640429999999997 5 CDL HEME C 0.0006205189999999999 2 HEC 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE 0.0007901449999999999 2 PC1 COPPER (II) ION 6.354599999999999e-05 1 CU SODIUM ION 2.299e-05 1 NA HEME-A 0.000852837 2 HEA MAGNESIUM ION 2.4305e-05 1 MG DINUCLEAR COPPER ION 0.00012709199999999998 1 CUA ZINC ION 6.5409e-05 1 ZN TRISTEAROYLGLYCEROL 0.0008914799999999999 1 TGL singleParticle particle 4 7.7 20.0 C8H18N2O4S HEPES 200.0 NaCl sodium chloride 2.0 C10H16N2O8 EDTA 0.2 C32H58N2O7S CHAPS
CHAPS was added only upon freezing
 Quantifoil R0.6/1 COPPER 300 CARBON CONTINUOUS 1.0 GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.4 0.2 1.6 2.7 75000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON III (4k x 4k) INTEGRATING 1 7245 1.17 90.66 1 1500000
multiple rounds of picking and classification performed, first with Relion LoG and then with Topaz, to extract the best particles from the non-pure starting material
 Gctf used for per-particle defocus CTFFIND used for initial CTF estimation RELION 3.1 used for CTF refinement PHASE FLIPPING AND AMPLITUDE CORRECTION 1NTZ
PDB 1NTZ for CIII and 5IY5 for CIV
 5IY5 1 C1 FOURIER SPACE 3.6 FSC 0.143 CUT-OFF cryoSPARC for CIV RELION 3.1 for global map and CIII
for CIV refinement, the particles were pooled with the full locked CIIICIV (23277 particles)
8426 MAXIMUM LIKELIHOOD RELION 3.1 MAXIMUM LIKELIHOOD RELION 3.1 5 12000.0 RELION 3.1
the particles were not evenly distributed in the classes. the intermediate supercomplex contained only 8.4k particles
 emd_12705.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 170 202 152 0 0 0 152 202 170 161.728 214.92801 180.88 90.0 90.0 90.0 Z Y X -0.02558048 0.32986543 0.006964747 0.020427816 1.064 1.064 1.064 0.05 AUTHOR Murine intermediate supercomplex CIII2CIV 1NTZ PDB experimental model 3L75 PDB experimental model 5IY5 PDB experimental model 5Z62 PDB experimental model OTHER MAXIMAL LIKELYHOOD REAL 80.0