Ovine ATP synthase 1a state

2024-05-22 REL PDBe PDBe PDBe 2019-12-23 2020-09-23 2020-09-23 2024-05-22 Ovine ATP synthase 1a state Pinke G Zhou L ATP synthase, mitochondrial, respiratory chain, mammalian, MEMBRANE PROTEIN Pinke G Zhou L Sazanov LA Cryo-EM structure of the entire mammalian F-type ATP synthase. Nat.Struct.Mol.Biol. US 27 1077 1085 2020 32929284 doi:10.1038/s41594-020-0503-8 1545-9985 6tt7 FULLOVERLAP Purified ATP synthase from sheep heart mitochondria Purified ATP synthase from sheep heart mitochondria 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 Ovis aries ATP synthase subunit alpha Ovis aries 0.059779492 3 LEVO MLSVRVAAAVARALPRRAGLVSKNALGSSFIAARNLHASNSRLQKTGTAEVSSILEERILGADTSVDLEETGRVLSIGDG IARVHGLRNVQAEEMVEFSSGLKGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDG KGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKK KLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVA YRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF YKGIRPAINVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRLTELLKQGQYSPMA IEEQVAVIYAGVRGYLDKLEPSKITKFENAFLSHVISQHQTLLGKIRTDGKISEEADAKLKEIVTNFLAGFEA W5NY50 ATP synthase subunit beta Ovis aries 0.05626509 3 LEVO MLGLVGRVAAASASGALRGVNPSAPLPQAQLLLRAAPAALQPARDYAAQASPSPKAGGATGRIVAVIGAVVDVQFDEGLP PILNALEVQGRETRLVLEVAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPIKT KQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERT REGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSA LLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDP LDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVSRARKIQRFLSQPFQVAEVFTGHLGK LVPLKETIKGFQQILAGEFDHLPEQAFYMVGPIEEAVAKADKLAEEHS W5PEP7 7.1.2.2 ATP synthase subunit gamma Ovis aries 0.033133062

XP_004014229.1

1 LEVO MFSRAGVAGLSAWTVQPQWIQVRNMATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLALYEKA DIKTPEDKKKHLIIGVSSDRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVGDKIRSILHRTHSDQFLVTFKEVGRRP PTFGDASVIALELLNSGYEFDEGSIIFNRFRSVISYKTEEKPIFSLDTISSAESMSIYDDIDADVLRNYQEYSLANIIYY SLKESTTSEQSARMTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAAALE ATP synthase F1 subunit delta Ovis aries 0.017580923999999998 1 LEVO MLPSALLRRPGLGRLVRQVRAYAEAAPAQAPAAGPGQMSFTFASPTQVFFNGANVRQVDVPTQTGAFGILAAHVPTLQVL RPGLVVVHAEDGTTSKYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQIRIEAN EALVKALE W5PP03 ATP synthase F1 subunit epsilon Ovis aries 0.005779863

XP_027832792.1

1 LEVO MVAYWRQAGLSYIRYSQICAKAVRDALKTEFKANAMKTSGSSIKIVKVKKE W5Q3H8 ATP synthase peripheral stalk subunit OSCP Ovis aries 0.023435695 1 LEVO MAALAVSGLSQQVRCFSTSVVRPFAKLVRPPVQIYGIEGRYATALYSAASKQNKLEQVEKELLRVGQILKEPKMAASLMN PYVKRSVKVKSLNDMTAKEKFSPLTSNLINLLAENGRLNNTPAVISAFSTMMSVHRGEVPCTVTTASPLDEATLTELKTV LKSFLSKGQVLKLEVKIDPSIMGGMIVRIGEKYVDMSAKTKIQKLSRAMREIL W5PTA0 ATP synthase subunit b Ovis aries 0.02884457

XP_004002367.2

1 LEVO MLSRVVLSAAAAAAPSLKNAAFLGPGVLQATRIFHTGQPSLAPVPPLPEHGGKVRFGLIPEEFFQFLYPKTGVTGPYVLG TGLILYLLSKEIYVITPETFSAISTIGFLVYVVKKYGASVGEFADKLNEQKIAQLEEVKQASIKQIQDAIDMEKSQQALV QKRHYLFDVQRNNIAMALEVTYRERLHRVYREVKNRLDYHISVQNMMRQKEQEHMINWVEKHVVQSISAQQEKETIAKCI ADLKLLAKKAQAQPVM W5QEA9 ATP synthase-coupling factor 6, mitochondrial Ovis aries 0.012490296 1 LEVO MILQRLFRLSSVVQSAISVSLRRNIGVTAVAFNKELDPVQKLFVDKIREYRTKRQTSGGPVDAGPEYQQDLDRELFKLKQ MYGKADMNTFPNFTFEDPKFEVVEKPQS W5Q0Q5 ATP synthase subunit d, mitochondrial Ovis aries 0.018747508 1 LEVO MAGRKLALKTIDWVAFGEIIPRNQKAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANVTKAGLVDDFEKKFNALKVP IPEDKYTAQVDAEEKEDVKSCAEFLIQSKTRIQEYEKELEKMRNIIPFDQMTIEDLNEVFPETKLDKKKYPYWPHRPIES L W5PP37 ATP synthase F(0) complex subunit C1, mitochondrial Ovis aries 0.014201576999999998 8 LEVO MQTTGALLISPALIRSCTRGLIRPVSASFLSRPEIPSVQPSYSSGPLQVARREFQTSVVSRDIDTAAKFIGAGAATVGVA GSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMVAFLILFAM P17605 ATP synthase subunit a Ovis aries 0.024811849999999996 1 LEVO MNENLFASFITPMMFGLPLVTLIVLFPSLLFPTSNRLVNNRLISLQQWMLQLVSKQMMSIHNTKGQTWALMLMSLILFIG STNLLGLLPHSFTPTTQLSMNLGMAIPLWGGAVITGFRNKTKASLAHFLPQGTPTPLIPMLVIIETISLFIQPVALAVRL TANITAGHLLIHLIGGATLALMSINTTTALITFIILILLTVLEFAVAMIQAYVFTLLVSLYLHDNT O78752 Subunit DAPIT Ovis aries 0.006443579 1 LEVO MAGPEADAQFHFTGIKKYFNSYTLTGRMNCVLATYGSIALIVLYFKLRSKKTPAVKAT W5P5H1 ATP synthase membrane subunit 6.8PL Ovis aries 0.006846092999999999 1 LEVO MLQSLIKKVWIPMKPYYTQAYQEIWVGTGLMAYIVYKIRSADKRSKALKASSAAPAHGHH W5P913 ATP synthase protein 8 Ovis aries 0.007918443 1 LEVO MPQLDTSTWLTMILSMFLVLFIIFQLKISKHNFYHNPELMTTKTPKQNTPWETKWTKIYLPLSLPL O78751 ATP synthase membrane subunit f Ovis aries 0.010315207

XP_004016938.3

1 LEVO MASVVPLKEKKLLEVKLGELPSWILMRDFTPSGIAGAFQRGYYRYYNKYVNVKKGSIAGLSMVLAAYVFLNYCRSYKELK HERLRKYH W5QB48 ATP synthase subunit Ovis aries 0.011428406999999998

XP_011950914.1

1 LEVO MAQFVRNLAEKAPALVNAAVTYSKPRLATFWYYAKVELVPPTPAEIPTAIQSLKKIINSAKTGSFKQLTVKEALLNGLVA TEVWMWFYVGEIIGKRGIIGYDV W5Q5U7 Subunit e Ovis aries 0.008336688

XP_027827162.1

1 LEVO MVPPVQVSPLIKLGRYSALFLGMAYGAKRYNYLKPRAEEERRLAAEEKKKRDEQKRIERELAEAQEDTILK W5PF18 MAGNESIUM ION 2.4305e-05 3 MG ADENOSINE-5'-DIPHOSPHATE 0.000427201 5 ADP 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 6 LHG O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine 0.000792075 1 P5S CARDIOLIPIN 0.0014640429999999997 3 CDL O-[(S)-hydroxy{[(2S)-2-hydroxy-3-(octadec-9-enoyloxy)propyl]oxy}phosphoryl]-L-serine 0.000523597 1 S12 singleParticle particle 2.8 7.4

20 mM HEPES pH7.4, 35 mM NaCl, 2 mM EDTA, 1% sucrose, 1 mM DTT, 0.1% LMNG, 0.2% CHAPS

Quantifoil R0.6/1 COPPER 400 GLOW DISCHARGE 120 AIR ETHANE-PROPANE 100 277 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 1.0 2.4 131951.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON III (4k x 4k) INTEGRATING 4096 4096 1 3053 1.0 106.0

40 frames per movie

1 809000 5ARA C1 3.5 FSC 0.143 CUT-OFF RELION 3.0 35000 MAXIMUM LIKELIHOOD RELION 3.0 MAXIMUM LIKELIHOOD RELION 3.0 RELION 3.0 emd_10573.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 230 139 138 0 0 0 138 139 230 146.418 147.479 244.03 90.0 90.0 90.0 Z Y X 0.0 0.19801688 0.0052001504 0.015188017 1.061 1.061 1.061 0.035 AUTHOR ::::EMDATABANK.org::::EMD-10573:::: Composite map of state 1a of ovine F1Fo, obtained from series of focused refinements as described in the paper. 5ARA PDB experimental model AB INITIO MODEL REAL 5ARA PDB experimental model AB INITIO MODEL REAL 96.0