2024-03-27 REL PDBj PDBj PDBj 2018-09-25 2019-05-15 2019-05-15 2024-03-27 Tra1 subunit from Saccharomyces cerevisiae SAGA complex Zheng XD Liu GC Epigenetics, Acetyltransferase, Transcription, Co-activator Liu G Zheng X Guan H Cao Y Qu H Kang J Ren X Lei J Dong MQ Li X Li H Architecture ofSaccharomyces cerevisiaeSAGA complex. Cell Discov UK 5 25 25 2019 31069110 doi:10.1038/s41421-019-0094-x 2056-5968 6ig9 FULLOVERLAP Tra1 / ScTra1 Tra1 / ScTra1 0 1
One of the major part from SAGA (Spt-Ada-Gcn5-Acetyltransferase) complex
Saccharomyces cerevisiae Nucleus nucleus 1.8 Transcription-associated protein 1 Saccharomyces cerevisiae BYL4741 0.43367728099999997 1 LEVO MSLTEQIEQFASRFRDDDATLQSRYSTLSELYDIMELLNSPEDYHFFLQAVIPLLLNQLKEVPISYDAHSPEQKLRNSML DIFNRCLMNQTFQPYAMEVLEFLLSVLPKENEENGILCMKVLTTLFKSFKSILQDKLDSFIRIIIQIYKNTPNLINQTFY EAGKAEQGDLDSPKEPQADELLDEFSKNDEEKDFPSKQSSTEPRFENSTSSNGLRSSMFSFKILSECPITMVTLYSSYKQ LTSTSLPEFTPLIMNLLNIQIKQQQEAREQAESRGEHFTSISTEIINRPAYCDFILAQIKATSFLAYVFIRGYAPEFLQD YVNFVPDLIIRLLQDCPSELSSARKELLHATRHILSTNYKKLFLPKLDYLFDERILIGNGFTMHETLRPLAYSTVADFIH NIRSELQLSEIEKTIKIYTGYLLDESLALTVQIMSAKLLLNLVERILKLGKENPQEAPRAKKLLMIIIDSYMNRFKTLNR QYDTIMKYYGRYETHKKEKAEKLKNSIQDNDKESEEFMRKVLEPSDDDHLMPQPKKEDINDSPDVEMTESDKVVKNDVEM FDIKNYAPILLLPTPTNDPIKDAFYLYRTLMSFLKTIIHDLKVFNPPPNEYTVANPKLWASVSRVFSYEEVIVFKDLFHE CIIGLKFFKDHNEKLSPETTKKHFDISMPSLPVSATKDARELMDYLAFMFMQMDNATFNEIIEQELPFVYERMLEDSGLL HVAQSFLTSEITSPNFAGILLRFLKGKLKDLGNVDFNTSNVLIRLFKLSFMSVNLFPNINEVVLLPHLNDLILNSLKYST TAEEPLVYFYLIRTLFRSIGGGRFENLYRSIKPILQVLLQSLNQMILTARLPHERELYVELCITVPVRLSVLAPYLPFLM KPLVFALQQYPDLVSQGLRTLELCIDNLTAEYFDPIIEPVIDDVSKALFNLLQPQPFNHAISHNVVRILGKLGGRNRQFL KPPTDLTEKTELDIDAIADFKINGMPEDVPLSVTPGIQSALNILQSYKSDIHYRKSAYKYLTCVLLLMTKSSAEFPTNYT ELLKTAVNSIKLERIGIEKNFDLEPTVNKRDYSNQENLFLRLLESVFYATSIKELKDDAMDLLNNLLDHFCLLQVNTTLL NKRNYNGTFNIDLKNPNFMLDSSLILDAIPFALSYYIPEVREVGVLAYKRIYEKSCLIYGEELALSHSFIPELAKQFIHL CYDETYYNKRGGVLGIKVLIDNVKSSSVFLKKYQYNLANGLLFVLKDTQSEAPSAITDSAEKLLIDLLSITFADVKEEDL GNKVLENTLTDIVCELSNANPKVRNACQKSLHTISNLTGIPIVKLMDHSKQFLLSPIFAKPLRALPFTMQIGNVDAITFC LSLPNTFLTFNEELFRLLQESIVLADAEDESLSTNIQKTTEYSTSEQLVQLRIACIKLLAIALKNEEFATAQQGNIRIRI LAVFFKTMLKTSPEIINTTYEALKGSLAENSKLPKELLQNGLKPLLMNLSDHQKLTVPGLDALSKLLELLIAYFKVEIGR KLLDHLTAWCRVEVLDTLFGQDLAEQMPTKIIVSIINIFHLLPPQADMFLNDLLLKVMLLERKLRLQLDSPFRTPLARYL NRFHNPVTEYFKKNMTLRQLVLFMCNIVQRPEAKELAEDFEKELDNFYDFYISNIPKNQVRVVSFFTNMVDLFNTMVITN GDEWLKKKGNMILKLKDMLNLTLKTIKENSFYIDHLQLNQSIAKFQALYLRFTELSERDQNPLLLDFIDFSFSNGIKASY SLKKFIFHNIIASSNKEKQNNFINDATLFVLSDKCLDARIFVLKNVINSTLIYEVATSGSLKSYLVEDKKPKWLELLHNK IWKNSNAILAYDVLDHHDLFRFELLQLSAIFIKADPEIIAEIKKDIIKFCWNFIKLEDTLIKQSAYLVTSYFISKFDFPI KVVTQVFVALLRSSHVEARYLVKQSLDVLTPVLHERMNAAGTPDTWINWVKRVMVENSSSQNNILYQFLISHPDLFFNSR DLFISNIIHHMNKITFMSNSNSDSHTLAIDLASLILYWENKTLEITNVNNTKTDSDGDVVMSDSKSDINPVEADTTAIIV DANNNSPISLHLREACTAFLIRYVCASNHRAIETELGLRAINILSELISDKHWTNVNVKLVYFEKFLIFQDLDSENILYY CMNALDVLYVFFKNKTKEWIMENLPTIQNLLEKCIKSDHHDVQEALQKVLQVIMKAIKAQGVSVIIEEESPGKTFIQMLT SVITQDLQETSSVTAGVTLAWVLFMNFPDNIVPLLTPLMKTFSKLCKDHLSISQPKDAMALEEARITTKLLEKVLYILSL KVSLLGDSRRPFLSTVALLIDHSMDQNFLRKIVNMSRSWIFNTEIFPTVKEKAAILTKMLAFEIRGEPSLSKLFYEIVLK LFDQEHFNNTEITVRMEQPFLVGTRVEDIGIRKRFMTILDNSLERDIKERLYYVIRDQNWEFIADYPWLNQALQLLYGSF NREKELSLKNIYCLSPPSILQEYLPENAEMVTEVNDLELSNFVKGHIASMQGLCRIISSDFIDSLIEIFYQDPKAIHRAW VTLFPQVYKSIPKNEKYGFVRSIITLLSKPYHTRQISSRTNVINMLLDSISKIESLELPPHLVKYLAISYNAWYQSINIL ESIQSNTSIDNTKIIEANEDALLELYVNLQEEDMFYGLWRRRAKYTETNIGLSYEQIGLWDKAQQLYEVAQVKARSGALP YSQSEYALWEDNWIQCAEKLQHWDVLTELAKHEGFTDLLLECGWRVADWNSDRDALEQSVKSVMDVPTPRRQMFKTFLAL QNFAESRKGDQEVRKLCDEGIQLSLIKWVSLPIRYTPAHKWLLHGFQQYMEFLEATQIYANLHTTTVQNLDSKAQEIKRI LQAWRDRLPNTWDDVNMWNDLVTWRQHAFQVINNAYLPLIPALQQSNSNSNINTHAYRGYHEIAWVINRFAHVARKHNMP DVCISQLARIYTLPNIEIQEAFLKLREQAKCHYQNMNELTTGLDVISNTNLVYFGTVQKAEFFTLKGMFLSKLRAYEEAN QAFATAVQIDLNLAKAWAQWGFFNDRRLSEEPNNISFASNAISCYLQAAGLYKNSKIRELLCRILWLISIDDASGMLTNA FDSFRGEIPVWYWITFIPQLLTSLSHKEANMVRHILIRIAKSYPQALHFQLRTTKEDFAVIQRQTMAVMGDKPDTNDRNG RRQPWEYLQELNNILKTAYPLLALSLESLVAQINDRFKSTTDEDLFRLINVLLIDGTLNYNRLPFPRKNPKLPENTEKNL VKFSTTLLAPYIRPKFNADFIDNKPDYETYIKRLRYWRRRLENKLDRASKKENLEVLCPHLSNFHHQKFEDIEIPGQYLL NKDNNVHFIKIARFLPTVDFVRGTHSSYRRLMIRGHDGSVHSFAVQYPAVRHSRREERMFQLYRLFNKSLSKNVETRRRS IQFNLPIAIPLSPQVRIMNDSVSFTTLHEIHNEFCKKKGFDPDDIQDFMADKLNAAHDDALPAPDMTILKVEIFNSIQTM FVPSNVLKDHFTSLFTQFEDFWLFRKQFASQYSSFVFMSYMMMINNRTPHKIHVDKTSGNVFTLEMLPSRFPYERVKPLL KNHDLSLPPDSPIFHNNEPVPFRLTPNIQSLIGDSALEGIFAVNLFTISRALIEPDNELNTYLALFIRDEIISWFSNLHR PIIENPQLREMVQTNVDLIIRKVAQLGHLNSTPTVTTQFILDCIGSAVSPRNLARTDVNFMPWF P38811 singleParticle particle 0.2 8.5 20.0 HEPES 150.0 NaCl
20mM HEPES pH 8.5 150mM Nacl
 Quantifoil R2/2 COPPER 400 CARBON HOLEY 5.0 GLOW DISCHARGE AIR 101.325
The grid was coated with a home-made thin continuous carbon film.
 ETHANE 95 281 FEI VITROBOT MARK IV
Blot for 4 seconds and wait for 30 seconds before plunging.
We extracted it from the overall SAGA complex structure.
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 0.1 1.2 1.2 3.0 3.0 81000.0 81000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 70.0 70.0 With a Cs-corrector GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 3838 3710 3-30 8526 0.25 5.6 1 1350000
GPU accelerated
 We use cryoSPARC software to generate in silicon automatically. 1 C1 FOURIER SPACE 4.6 FSC 0.143 CUT-OFF RELION 2.0 GPU accelerated
GPU accelerated
176464 RANDOM ASSIGNMENT cryoSPARC 1.6 GPU accelerated MAXIMUM LIKELIHOOD RELION 2.0 GPU accelerated
GPU accelerated
 10 RELION 2.0 GPU accelerated
GPU accelerated
 emd_9664.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 504.36002 504.36002 504.36002 90.0 90.0 90.0 X Y Z -0.052679177 0.122503795 0.00017765604 0.0025359453 1.401 1.401 1.401 0.025 AUTHOR 5OJS PDB experimental model AB INITIO MODEL REAL emd_9664_msk_1.map emd_9664_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 504.36002 504.36002 504.36002 90.0 90.0 90.0 X Y Z -0.052679177 0.122503795 0.00017765604 0.0025359453 1.401 1.401 1.401 AUTHOR emd_9664_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 504.36002 504.36002 504.36002 90.0 90.0 90.0 X Y Z -0.017319089 0.044406205 0.00008254735 0.0014508839 1.401 1.401 1.401 AUTHOR emd_9664_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 504.36002 504.36002 504.36002 90.0 90.0 90.0 X Y Z -0.017658638 0.04555496 0.00008206605 0.0014521796 1.401 1.401 1.401 AUTHOR