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- EMDB-34520: Cryo-EM structure of the human SAGA complex -

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Basic information

Entry
Database: EMDB / ID: EMD-34520
TitleCryo-EM structure of the human SAGA complex
Map datathis is the main map of the human SAGA complex
Sample
  • Complex: human SAGA transcriptional coactivator complex
    • Protein or peptide: x 14 types
Function / homology
Function and homology information


: / : / : / : / SAGA-type complex / : / : / : / regulation of somatic stem cell population maintenance / SAGA complex assembly ...: / : / : / : / SAGA-type complex / : / : / : / regulation of somatic stem cell population maintenance / SAGA complex assembly / lateral mesodermal cell differentiation / allantois development / pre-snoRNP complex / Swr1 complex / transcription factor TFTC complex / SLIK (SAGA-like) complex / splicing factor binding / regulation of double-strand break repair / U12-type spliceosomal complex / positive regulation of response to cytokine stimulus / negative regulation of microtubule depolymerization / hepatocyte differentiation / maintenance of protein location in nucleus / RNA splicing, via transesterification reactions / U2-type spliceosomal complex / U2-type precatalytic spliceosome / C2H2 zinc finger domain binding / U2-type prespliceosome assembly / box C/D snoRNP assembly / U2 snRNP / SAGA complex / RNA polymerase binding / limb development / transcription preinitiation complex / NuA4 histone acetyltransferase complex / nucleus organization / response to L-glutamate / precatalytic spliceosome / negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / RNA polymerase II general transcription initiation factor activity / positive regulation of double-strand break repair via homologous recombination / transcription factor TFIID complex / mRNA Splicing - Minor Pathway / regulation of RNA splicing / HIV Transcription Initiation / RNA Polymerase II HIV Promoter Escape / Transcription of the HIV genome / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / MLL1 complex / histone deacetylase complex / RNA polymerase II transcribes snRNA genes / negative regulation of proteasomal ubiquitin-dependent protein catabolic process / histone acetyltransferase complex / gastrulation / positive regulation of transcription initiation by RNA polymerase II / embryonic placenta development / regulation of DNA repair / U2 snRNA binding / somitogenesis / RNA polymerase II preinitiation complex assembly / RNA Polymerase II Pre-transcription Events / catalytic step 2 spliceosome / TBP-class protein binding / visual perception / mRNA Splicing - Major Pathway / response to interleukin-1 / RNA splicing / male germ cell nucleus / nuclear estrogen receptor binding / promoter-specific chromatin binding / transcription initiation at RNA polymerase II promoter / DNA-templated transcription initiation / transcription coregulator activity / spliceosomal complex / Formation of the beta-catenin:TCF transactivating complex / G1/S transition of mitotic cell cycle / multicellular organism growth / mRNA transcription by RNA polymerase II / negative regulation of protein catabolic process / cytoplasmic ribonucleoprotein granule / microtubule cytoskeleton organization / mRNA splicing, via spliceosome / nuclear matrix / autophagy / microtubule cytoskeleton / nucleosome / p53 binding / chromatin organization / HATs acetylate histones / ATPase binding / regulation of apoptotic process / DNA-binding transcription factor binding / Regulation of TP53 Activity through Phosphorylation / transcription by RNA polymerase II / transcription coactivator activity / protein stabilization / transcription cis-regulatory region binding
Similarity search - Function
STAGA complex 65 subunit gamma / Transcription-associated protein 1 / Transcription factor Spt20 / Transcriptional coactivator Hfi1/Transcriptional adapter 1 / Transcriptional regulator of RNA polII, SAGA, subunit / Spt20-like, SEP domain / Spt20, SEP domain / SCA7 domain / SCA7, zinc-binding domain / SCA7 domain profile. ...STAGA complex 65 subunit gamma / Transcription-associated protein 1 / Transcription factor Spt20 / Transcriptional coactivator Hfi1/Transcriptional adapter 1 / Transcriptional regulator of RNA polII, SAGA, subunit / Spt20-like, SEP domain / Spt20, SEP domain / SCA7 domain / SCA7, zinc-binding domain / SCA7 domain profile. / Splicing factor 3B, subunit 5 / Transcription initiation factor IID, subunit 13 / Transcription initiation factor IID, 18kD subunit / Bromodomain associated / Bromodomain transcription factors and PHD domain containing proteins / Bromodomain associated domain / Transcription initiation factor IID, 31kD subunit / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit A / TFIID subunit TAF5, NTD2 domain superfamily / WD40 associated region in TFIID subunit, NTD2 domain / Transcription initiation factor TAFII31 / Splicing factor 3B subunit 5/RDS3 complex subunit 10 / TAF6, C-terminal HEAT repeat domain superfamily / Splicing factor 3B subunit 10 (SF3b10) / TATA box binding protein associated factor (TAF) / Transcription initiation factor TFIID subunit 12 domain / TFIID subunit TAF5, NTD2 domain / Transcription initiation factor TFIID subunit 6 / TAF6 C-terminal HEAT repeat domain / TAF6, C-terminal HEAT repeat domain / Transcription initiation factor TFIID 23-30kDa subunit / Transcription initiation factor TFIID, 23-30kDa subunit / PIK-related kinase, FAT / FAT domain / FATC / Cleavage/polyadenylation specificity factor, A subunit, N-terminal / Mono-functional DNA-alkylating methyl methanesulfonate N-term / Cleavage/polyadenylation specificity factor, A subunit, C-terminal / CPSF A subunit region / FATC domain / PIK-related kinase / FAT domain profile. / FATC domain profile. / Phosphoinositide 3-kinase, catalytic domain / Phosphatidylinositol 3- and 4-kinase / Phosphatidylinositol 3- and 4-kinases catalytic domain profile. / Phosphatidylinositol 3-/4-kinase, catalytic domain / TATA box binding protein associated factor / TATA box binding protein associated factor (TAF), histone-like fold domain / Histone-fold / Armadillo-like helical / Armadillo-type fold / G-protein beta WD-40 repeat / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / WD domain, G-beta repeat / WD40 repeats / WD40 repeat / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily / Protein kinase-like domain superfamily
Similarity search - Domain/homology
Ataxin-7 / Transcription initiation protein SPT3 homolog / TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L / STAGA complex 65 subunit gamma / Transcription initiation factor TFIID subunit 10 / Splicing factor 3B subunit 3 / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit 9 / Transcription factor SPT20 homolog / Transcriptional adapter 1 ...Ataxin-7 / Transcription initiation protein SPT3 homolog / TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L / STAGA complex 65 subunit gamma / Transcription initiation factor TFIID subunit 10 / Splicing factor 3B subunit 3 / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit 9 / Transcription factor SPT20 homolog / Transcriptional adapter 1 / Splicing factor 3B subunit 5 / Transformation/transcription domain-associated protein / TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L
Similarity search - Component
Biological speciesHomo sapiens (human) / human (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.7 Å
AuthorsHuang J / Zhang Y
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: Cell Discov / Year: 2022
Title: Cryo-EM structure of human SAGA transcriptional coactivator complex.
Authors: Yuzhu Zhang / Changping Yin / Yue Yin / Mengqi Wei / Wei Jing / Chao Peng / Zhengjun Chen / Jing Huang /
History
DepositionOct 20, 2022-
Header (metadata) releaseDec 14, 2022-
Map releaseDec 14, 2022-
UpdateDec 14, 2022-
Current statusDec 14, 2022Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_34520.png

Downloads & links

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Map

FileDownload / File: emd_34520.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationthis is the main map of the human SAGA complex
Voxel sizeX=Y=Z: 1.1 Å
Density
Contour LevelBy AUTHOR: 0.015
Minimum - Maximum-0.059961315 - 0.11511354
Average (Standard dev.)-3.6121248e-05 (±0.0029035425)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions400400400
Spacing400400400
CellA=B=C: 440.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: this is the first map focused on SUPT3H to build chain E

Fileemd_34520_additional_1.map
Annotationthis is the first map focused on SUPT3H to build chain E
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is a map focused on the SF3B3...

Fileemd_34520_additional_2.map
Annotationthis is a map focused on the SF3B3 and SF3B5 to help the model building
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is a map focused on TRRAP to help the model building

Fileemd_34520_additional_3.map
Annotationthis is a map focused on TRRAP to help the model building
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is a map focused on the weak...

Fileemd_34520_additional_4.map
Annotationthis is a map focused on the weak regions of TRRAP to help the model building
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is a map focused on the core...

Fileemd_34520_additional_5.map
Annotationthis is a map focused on the core module of the human SAGA complex to help the model building
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is the second map focused on SUPT3H to build chain E

Fileemd_34520_additional_6.map
Annotationthis is the second map focused on SUPT3H to build chain E
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: this is a map focused on the TAF6L...

Fileemd_34520_additional_7.map
Annotationthis is a map focused on the TAF6L HEAT domain to help the model building
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: this is the EM half map 1

Fileemd_34520_half_map_1.map
Annotationthis is the EM half map 1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: this is the EM half map 1

Fileemd_34520_half_map_2.map
Annotationthis is the EM half map 1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : human SAGA transcriptional coactivator complex

EntireName: human SAGA transcriptional coactivator complex
Components
  • Complex: human SAGA transcriptional coactivator complex
    • Protein or peptide: Transformation/transcription domain-associated protein
    • Protein or peptide: Splicing factor 3B subunit 3
    • Protein or peptide: Splicing factor 3B subunit 5
    • Protein or peptide: Transcription factor SPT20 homolog
    • Protein or peptide: Transcription initiation protein SPT3 homologTranscription (biology)
    • Protein or peptide: Transcriptional adapter 1
    • Protein or peptide: TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L
    • Protein or peptide: STAGA complex 65 subunit gamma
    • Protein or peptide: TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L
    • Protein or peptide: Transcription initiation factor TFIID subunit 9
    • Protein or peptide: Transcription initiation factor TFIID subunit 10
    • Protein or peptide: Transcription initiation factor TFIID subunit 12
    • Protein or peptide: Unassigned sequence
    • Protein or peptide: Ataxin-7Ataxin 7

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Supramolecule #1: human SAGA transcriptional coactivator complex

SupramoleculeName: human SAGA transcriptional coactivator complex / type: complex / Chimera: Yes / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 1.4 MDa

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Macromolecule #1: Transformation/transcription domain-associated protein

MacromoleculeName: Transformation/transcription domain-associated protein
type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 438.139531 KDa
SequenceString: MAFVATQGAT VVDQTTLMKK YLQFVAALTD VNTPDETKLK MMQEVSENFE NVTSSPQYST FLEHIIPRFL TFLQDGEVQF LQEKPAQQL RKLVLEIIHR IPTNEHLRPH TKNVLSVMFR FLETENEENV LICLRIIIEL HKQFRPPITQ EIHHFLDFVK Q IYKELPKV ...String:
MAFVATQGAT VVDQTTLMKK YLQFVAALTD VNTPDETKLK MMQEVSENFE NVTSSPQYST FLEHIIPRFL TFLQDGEVQF LQEKPAQQL RKLVLEIIHR IPTNEHLRPH TKNVLSVMFR FLETENEENV LICLRIIIEL HKQFRPPITQ EIHHFLDFVK Q IYKELPKV VNRYFENPQV IPENTVPPPE MVGMITTIAV KVNPEREDSE TRTHSIIPRG SLSLKVLAEL PIIVVLMYQL YK LNIHNVV AEFVPLIMNT IAIQVSAQAR QHKLYNKELY ADFIAAQIKT LSFLAYIIRI YQELVTKYSQ QMVKGMLQLL SNC PAETAH LRKELLIAAK HILTTELRNQ FIPCMDKLFD ESILIGSGYT ARETLRPLAY STLADLVHHV RQHLPLSDLS LAVQ LFAKN IDDESLPSSI QTMSCKLLLN LVDCIRSKSE QESGNGRDVL MRMLEVFVLK FHTIARYQLS AIFKKCKPQS ELGAV EAAL PGVPTAPAAP GPAPSPAPVP APPPPPPPPP PATPVTPAPV PPFEKQGEKD KEDKQTFQVT DCRSLVKTLV CGVKTI TWG ITSCKAPGEA QFIPNKQLQP KETQIYIKLV KYAMQALDIY QVQIAGNGQT YIRVANCQTV RMKEEKEVLE HFAGVFT MM NPLTFKEIFQ TTVPYMVERI SKNYALQIVA NSFLANPTTS ALFATILVEY LLDRLPEMGS NVELSNLYLK LFKLVFGS V SLFAAENEQM LKPHLHKIVN SSMELAQTAK EPYNYFLLLR ALFRSIGGGS HDLLYQEFLP LLPNLLQGLN MLQSGLHKQ HMKDLFVELC LTVPVRLSSL LPYLPMLMDP LVSALNGSQT LVSQGLRTLE LCVDNLQPDF LYDHIQPVRA ELMQALWRTL RNPADSISH VAYRVLGKFG GSNRKMLKES QKLHYVVTEV QGPSITVEFS DCKASLQLPM EKAIETALDC LKSANTEPYY R RQAWEVIK CFLVAMMSLE DNKHALYQLL AHPNFTEKTI PNVIISHRYK AQDTPARKTF EQALTGAFMS AVIKDLRPSA LP FVASLIR HYTMVAVAQQ CGPFLLPCYQ VGSQPSTAMF HSEENGSKGM DPLVLIDAIA ICMAYEEKEL CKIGEVALAV IFD VASIIL GSKERACQLP LFSYIVERLC ACCYEQAWYA KLGGVVSIKF LMERLPLTWV LQNQQTFLKA LLFVMMDLTG EVSN GAVAM AKTTLEQLLM RCATPLKDEE RAEEIVAAQE KSFHHVTHDL VREVTSPNST VRKQAMHSLQ VLAQVTGKSV TVIME PHKE VLQDMVPPKK HLLRHQPANA QIGLMEGNTF CTTLQPRLFT MDLNVVEHKV FYTELLNLCE AEDSALTKLP CYKSLP SLV PLRIAALNAL AACNYLPQSR EKIIAALFKA LNSTNSELQE AGEACMRKFL EGATIEVDQI HTHMRPLLMM LGDYRSL TL NVVNRLTSVT RLFPNSFNDK FCDQMMQHLR KWMEVVVITH KGGQRSDGNE SISECGRCPL SPFCQFEEMK ICSAIINL F HLIPAAPQTL VKPLLEVVMK TERAMLIEAG SPFREPLIKF LTRHPSQTVE LFMMEATLND PQWSRMFMSF LKHKDARPL RDVLAANPNR FITLLLPGGA QTAVRPGSPS TSTMRLDLQF QAIKIISIIV KNDDSWLASQ HSLVSQLRRV WVSENFQERH RKENMAATN WKEPKLLAYC LLNYCKRNYG DIELLFQLLR AFTGRFLCNM TFLKEYMEEE IPKNYSIAQK RALFFRFVDF N DPNFGDEL KAKVLQHILN PAFLYSFEKG EGEQLLGPPN PEGDNPESIT SVFITKVLDP EKQADMLDSL RIYLLQYATL LV EHAPHHI HDNNKNRNSK LRRLMTFAWP CLLSKACVDP ACKYSGHLLL AHIIAKFAIH KKIVLQVFHS LLKAHAMEAR AIV RQAMAI LTPAVPARME DGHQMLTHWT RKIIVEEGHT VPQLVHILHL IVQHFKVYYP VRHHLVQHMV SAMQRLGFTP SVTI EQRRL AVDLSEVVIK WELQRIKDQQ PDSDMDPNSS GEGVNSVSSS IKRGLSVDSA QEVKRFRTAT GAISAVFGRS QSLPG ADSL LAKPIDKQHT DTVVNFLIRV ACQVNDNTNT AGSPGEVLSR RCVNLLKTAL RPDMWPKSEL KLQWFDKLLM TVEQPN QVN YGNICTGLEV LSFLLTVLQS PAILSSFKPL QRGIAACMTC GNTKVLRAVH SLLSRLMSIF PTEPSTSSVA SKYEELE CL YAAVGKVIYE GLTNYEKATN ANPSQLFGTL MILKSACSNN PSYIDRLISV FMRSLQKMVR EHLNPQAASG STEATSGT S ELVMLSLELV KTRLAVMSME MRKNFIQAIL TSLIEKSPDA KILRAVVKIV EEWVKNNSPM AANQTPTLRE KSILLVKMM TYIEKRFPED LELNAQFLDL VNYVYRDETL SGSELTAKLE PAFLSGLRCA QPLIRAKFFE VFDNSMKRRV YERLLYVTCS QNWEAMGNH FWIKQCIELL LAVCEKSTPI GTSCQGAMLP SITNVINLAD SHDRAAFAMV THVKQEPRER ENSESKEEDV E IDIELAPG DQTSTPKTKE LSEKDIGNQL HMLTNRHDKF LDTLREVKTG ALLSAFVQLC HISTTLAEKT WVQLFPRLWK IL SDRQQHA LAGEISPFLC SGSHQVQRDC QPSALNCFVE AMSQCVPPIP IRPCVLKYLG KTHNLWFRST LMLEHQAFEK GLS LQIKPK QTTEFYEQES ITPPQQEILD SLAELYSLLQ EEDMWAGLWQ KRCKYSETAT AIAYEQHGFF EQAQESYEKA MDKA KKEHE RSNASPAIFP EYQLWEDHWI RCSKELNQWE ALTEYGQSKG HINPYLVLEC AWRVSNWTAM KEALVQVEVS CPKEM AWKV NMYRGYLAIC HPEEQQLSFI ERLVEMASSL AIREWRRLPH VVSHVHTPLL QAAQQIIELQ EAAQINAGLQ PTNLGR NNS LHDMKTVVKT WRNRLPIVSD DLSHWSSIFM WRQHHYQGKP TWSGMHSSSI VTAYENSSQH DPSSNNAMLG VHASASA II QYGKIARKQG LVNVALDILS RIHTIPTVPI VDCFQKIRQQ VKCYLQLAGV MGKNECMQGL EVIESTNLKY FTKEMTAE F YALKGMFLAQ INKSEEANKA FSAAVQMHDV LVKAWAMWGD YLENIFVKER QLHLGVSAIT CYLHACRHQN ESKSRKYLA KVLWLLSFDD DKNTLADAVD KYCIGVPPIQ WLAWIPQLLT CLVGSEGKLL LNLISQVGRV YPQAVYFPIR TLYLTLKIEQ RERYKSDPG PIRATAPMWR CSRIMHMQRE LHPTLLSSLE GIVDQMVWFR ENWHEEVLRQ LQQGLAKCYS VAFEKSGAVS D AKITPHTL NFVKKLVSTF GVGLENVSNV STMFSSAASE SLARRAQATA QDPVFQKLKG QFTTDFDFSV PGSMKLHNLI SK LKKWIKI LEAKTKQLPK FFLIEEKCRF LSNFSAQTAE VEIPGEFLMP KPTHYYIKIA RFMPRVEIVQ KHNTAARRLY IRG HNGKIY PYLVMNDACL TESRREERVL QLLRLLNPCL EKRKETTKRH LFFTVPRVVA VSPQMRLVED NPSSLSLVEI YKQR CAKKG IEHDNPISRY YDRLATVQAR GTQASHQVLR DILKEVQSNM VPRSMLKEWA LHTFPNATDY WTFRKMFTIQ LALIG FAEF VLHLNRLNPE MLQIAQDTGK LNVAYFRFDI NDATGDLDAN RPVPFRLTPN ISEFLTTIGV SGPLTASMIA VARCFA QPN FKVDGILKTV LRDEIIAWHK KTQEDTSSPL SAAGQPENMD SQQLVSLVQK AVTAIMTRLH NLAQFEGGES KVNTLVA AA NSLDNLCRMD PAWHPWL

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Macromolecule #2: Splicing factor 3B subunit 3

MacromoleculeName: Splicing factor 3B subunit 3 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 135.718844 KDa
SequenceString: MFLYNLTLQR ATGISFAIHG NFSGTKQQEI VVSRGKILEL LRPDPNTGKV HTLLTVEVFG VIRSLMAFRL TGGTKDYIVV GSDSGRIVI LEYQPSKNMF EKIHQETFGK SGCRRIVPGQ FLAVDPKGRA VMISAIEKQK LVYILNRDAA ARLTISSPLE A HKANTLVY ...String:
MFLYNLTLQR ATGISFAIHG NFSGTKQQEI VVSRGKILEL LRPDPNTGKV HTLLTVEVFG VIRSLMAFRL TGGTKDYIVV GSDSGRIVI LEYQPSKNMF EKIHQETFGK SGCRRIVPGQ FLAVDPKGRA VMISAIEKQK LVYILNRDAA ARLTISSPLE A HKANTLVY HVVGVDVGFE NPMFACLEMD YEEADNDPTG EAAANTQQTL TFYELDLGLN HVVRKYSEPL EEHGNFLITV PG GSDGPSG VLICSENYIT YKNFGDQPDI RCPIPRRRND LDDPERGMIF VCSATHKTKS MFFFLAQTEQ GDIFKITLET DED MVTEIR LKYFDTVPVA AAMCVLKTGF LFVASEFGNH YLYQIAHLGD DDEEPEFSSA MPLEEGDTFF FQPRPLKNLV LVDE LDSLS PILFCQIADL ANEDTPQLYV ACGRGPRSSL RVLRHGLEVS EMAVSELPGN PNAVWTVRRH IEDEFDAYII VSFVN ATLV LSIGETVEEV TDSGFLGTTP TLSCSLLGDD ALVQVYPDGI RHIRADKRVN EWKTPGKKTI VKCAVNQRQV VIALTG GEL VYFEMDPSGQ LNEYTERKEM SADVVCMSLA NVPPGEQRSR FLAVGLVDNT VRIISLDPSD CLQPLSMQAL PAQPESL CI VEMGGTEKQD ELGERGSIGF LYLNIGLQNG VLLRTVLDPV TGDLSDTRTR YLGSRPVKLF RVRMQGQEAV LAMSSRSW L SYSYQSRFHL TPLSYETLEF ASGFASEQCP EGIVAISTNT LRILALEKLG AVFNQVAFPL QYTPRKFVIH PESNNLIII ETDHNAYTEA TKAQRKQQMA EEMVEAAGED ERELAAEMAA AFLNENLPES IFGAPKAGNG QWASVIRVMN PIQGNTLDLV QLEQNEAAF SVAVCRFSNT GEDWYVLVGV AKDLILNPRS VAGGFVYTYK LVNNGEKLEF LHKTPVEEVP AAIAPFQGRV L IGVGKLLR VYDLGKKKLL RKCENKHIAN YISGIQTIGH RVIVSDVQES FIWVRYKRNE NQLIIFADDT YPRWVTTASL LD YDTVAGA DKFGNICVVR LPPNTNDEVD EDPTGNKALW DRGLLNGASQ KAEVIMNYHV GETVLSLQKT TLIPGGSESL VYT TLSGGI GILVPFTSHE DHDFFQHVEM HLRSEHPPLC GRDHLSFRSY YFPVKNVIDG DLCEQFNSME PNKQKNVSEE LDRT PPEVS KKLEDIRTRY AF

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Macromolecule #3: Splicing factor 3B subunit 5

MacromoleculeName: Splicing factor 3B subunit 5 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 10.149369 KDa
SequenceString:
MTDRYTIHSQ LEHLQSKYIG TGHADTTKWE WLVNQHRDSY CSYMGHFDLL NYFAIAENES KARVRFNLME KMLQPCGPPA DKPEEN

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Macromolecule #4: Transcription factor SPT20 homolog

MacromoleculeName: Transcription factor SPT20 homolog / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 85.884875 KDa
SequenceString: MQQALELALD RAEYVIESAR QRPPKRKYLS SGRKSVFQKL YDLYIEECEK EPEVKKLRRN VNLLEKLVMQ ETLSCLVVNL YPGNEGYSL MLRGKNGSDS ETIRLPYEEG ELLEYLDAEE LPPILVDLLE KSQVNIFHCG CVIAEIRDYR QSSNMKSPGY Q SRHILLRP ...String:
MQQALELALD RAEYVIESAR QRPPKRKYLS SGRKSVFQKL YDLYIEECEK EPEVKKLRRN VNLLEKLVMQ ETLSCLVVNL YPGNEGYSL MLRGKNGSDS ETIRLPYEEG ELLEYLDAEE LPPILVDLLE KSQVNIFHCG CVIAEIRDYR QSSNMKSPGY Q SRHILLRP TMQTLICDVH SITSDNHKWT QEDKLLLESQ LILATAEPLC LDPSIAVTCT ANRLLYNKQK MNTRPMKRCF KR YSRSSLN RQQDLSHCPP PPQLRLLDFL QKRKERKAGQ HYDLKISKAG NCVDMWKRSP CNLAIPSEVD VEKYAKVEKS IKS DDSQPT VWPAHDVKDD YVFECEAGTQ YQKTKLTILQ SLGDPLYYGK IQPCKADEES DSQMSPSHSS TDDHSNWFII GSKT DAERV VNQYQELVQN EAKCPVKMSH SSSGSASLSQ VSPGKETDQT ETVSVQSSVL GKGVKHRPPP IKLPSSSGNS SSGNY FTPQ QTSSFLKSPT PPPSSKPSSI PRKSSVDLNQ VSMLSPAALS PASSSQRTTA TQVMANSAGL NFINVVGSVC GAQALM SGS NPMLGCNTGA ITPAGINLSG LLPSGGLLPN ALPSAMQAAS QAGVPFGLKN TSSLRPLNLL QLPGGSLIFN TLQQQQQ QL SQFTPQQPQQ PTTCSPQQPG EQGSEQGSTS QEQALSAQQA AVINLTGVGS FMQSQAAVLS QLGSAENRPE QSLPQQRF Q LSSAFQQQQQ QIQQLRFLQH QMAMAAAAAQ TAQLHHHRHT GSQSKSKMKR GTPTTPKF

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Macromolecule #5: Transcription initiation protein SPT3 homolog

MacromoleculeName: Transcription initiation protein SPT3 homolog / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 35.840816 KDa
SequenceString: MNNTAASPMS TATSSSGRST GKSISFATEL QSMMYSLGDA RRPLHETAVL VEDVVHTQLI NLLQQAAEVS QLRGARVITP EDLLFLMRK DKKKLRRLLK YMFIRDYKSK IVKGIDEDDL LEDKLSGSNN ANKRQKIAQD FLNSIDQTGE LLAMFEDDEI D EVKQERME ...String:
MNNTAASPMS TATSSSGRST GKSISFATEL QSMMYSLGDA RRPLHETAVL VEDVVHTQLI NLLQQAAEVS QLRGARVITP EDLLFLMRK DKKKLRRLLK YMFIRDYKSK IVKGIDEDDL LEDKLSGSNN ANKRQKIAQD FLNSIDQTGE LLAMFEDDEI D EVKQERME RAERQTRIMD SAQYAEFCES RQLSFSKKAS KFRDWLDCSS MEIKPNVVAM EILAYLAYET VAQLVDLALL VR QDMVTKA GDPFSHAISA TFIQYHNSAE STAACGVEAH SDAIQPCHIR EAIRRYSHRI GPLSPFTNAY RRNGMAFLAC

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Macromolecule #6: Transcriptional adapter 1

MacromoleculeName: Transcriptional adapter 1 / type: protein_or_peptide / ID: 6
Details: Author stated that the 1-39 residues in entity 6 is from the 3xFlag tag and a 3C protease cleavage site
Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 41.797043 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDYKDHDGDY KDHDIDYKDD DDKGGSGGSL EVLFQGPLDM ATFVSELEAA KKNLSEALGD NVKQYWANLK LWFKQKISKE EFDLEAHRL LTQDNVHSHN DFLLAILTRC QILVSTPDGA GSLPWPGGSA AKPGKPKGKK KLSSVRQKFD HRFQPQNPLS G AQQFVAKD ...String:
MDYKDHDGDY KDHDIDYKDD DDKGGSGGSL EVLFQGPLDM ATFVSELEAA KKNLSEALGD NVKQYWANLK LWFKQKISKE EFDLEAHRL LTQDNVHSHN DFLLAILTRC QILVSTPDGA GSLPWPGGSA AKPGKPKGKK KLSSVRQKFD HRFQPQNPLS G AQQFVAKD PQDDDDLKLC SHTMMLPTRG QLEGRMIVTA YEHGLDNVTE EAVSAVVYAV ENHLKDILTS VVSRRKAYRL RD GHFKYAF GSNVTPQPYL KNSVVAYNNL IESPPAFTAP CAGQNPASHP PPDDAEQQAA LLLACSGDTL PASLPPVNMY DLF EALQVH REVIPTHTVY ALNIERIITK LWHPNHEELQ QDKVHRQRLA AKEGLLLC

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Macromolecule #7: TAF5-like RNA polymerase II p300/CBP-associated factor-associated...

MacromoleculeName: TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L
type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 66.223047 KDa
SequenceString: MKRVRTEQIQ MAVSCYLKRR QYVDSDGPLK QGLRLSQTAE EMAANLTVQS ESGCANIVSA APCQAEPQQY EVQFGRLRNF LTDSDSQHS HEVMPLLYPL FVYLHLNLVQ NSPKSTVESF YSRFHGMFLQ NASQKDVIEQ LQTTQTIQDI LSNFKLRAFL D NKYVVRLQ ...String:
MKRVRTEQIQ MAVSCYLKRR QYVDSDGPLK QGLRLSQTAE EMAANLTVQS ESGCANIVSA APCQAEPQQY EVQFGRLRNF LTDSDSQHS HEVMPLLYPL FVYLHLNLVQ NSPKSTVESF YSRFHGMFLQ NASQKDVIEQ LQTTQTIQDI LSNFKLRAFL D NKYVVRLQ EDSYNYLIRY LQSDNNTALC KVLTLHIHLD VQPAKRTDYQ LYASGSSSRS ENNGLEPPDM PSPILQNEAA LE VLQESIK RVKDGPPSLT TICFYAFYNT EQLLNTAEIS PDSKLLAAGF DNSCIKLWSL RSKKLKSEPH QVDVSRIHLA CDI LEEEDD EDDNAGTEMK ILRGHCGPVY STRFLADSSG LLSCSEDMSI RYWDLGSFTN TVLYQGHAYP VWDLDISPYS LYFA SGSHD RTARLWSFDR TYPLRIYAGH LADVDCVKFH PNSNYLATGS TDKTVRLWSA QQGNSVRLFT GHRGPVLSLA FSPNG KYLA SAGEDQRLKL WDLASGTLYK ELRGHTDNIT SLTFSPDSGL IASASMDNSV RVWDIRNTYC SAPADGSSSE LVGVYT GQM SNVLSVQFMA CNLLLVTGIT QENQEH

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Macromolecule #8: STAGA complex 65 subunit gamma

MacromoleculeName: STAGA complex 65 subunit gamma / type: protein_or_peptide / ID: 8
Details: Author stated that a twin-strep tag and a TEV cleavage site was included C-terminal
Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 50.70534 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MNLQRYWGEI PISSSQTNRS SFDLLPREFR LVEVHDPPLH QPSANKPKPP TMLDIPSEPC SLTIHTIQLI QHNRRLRNLI ATAQAQNQQ QTEGVKTEES EPLPSCPGSP PLPDDLLPLD CKNPNAPFQI RHSDPESDFY RGKGEPVTEL SWHSCRQLLY Q AVATILAH ...String:
MNLQRYWGEI PISSSQTNRS SFDLLPREFR LVEVHDPPLH QPSANKPKPP TMLDIPSEPC SLTIHTIQLI QHNRRLRNLI ATAQAQNQQ QTEGVKTEES EPLPSCPGSP PLPDDLLPLD CKNPNAPFQI RHSDPESDFY RGKGEPVTEL SWHSCRQLLY Q AVATILAH AGFDCANESV LETLTDVAHE YCLKFTKLLR FAVDREARLG QTPFPDVMEQ VFHEVGIGSV LSLQKFWQHR IK DYHSYML QISKQLSEEY ERIVNPEKAT EDAKPVKIKE EPVSDITFPV SEELEADLAS GDQSLPMGVL GAQSERFPSN LEV EASPQA SSAEVNASPL WNLAHVKMEP QESEEGNVSG HGVLGSDVFE EPMSGMSEAG IPQSPDDSDS SYGSHSTDSL MGSS PVFNQ RCKKRMRKIG SENLYFQGSG TSTAWSHPQF EKTGVSITSS GSWSHPQFEK

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Macromolecule #9: TAF6-like RNA polymerase II p300/CBP-associated factor-associated...

MacromoleculeName: TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L
type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 67.903289 KDa
SequenceString: MSEREERRFV EIPRESVRLM AESTGLELSD EVAALLAEDV CYRLREATQN SSQFMKHTKR RKLTVEDFNR ALRWSSVEAV CGYGSQEAL PMRPAREGEL YFPEDREVNL VELALATNIP KGCAETAVRV HVSYLDGKGN LAPQGSVPSA VSSLTDDLLK Y YHQVTRAV ...String:
MSEREERRFV EIPRESVRLM AESTGLELSD EVAALLAEDV CYRLREATQN SSQFMKHTKR RKLTVEDFNR ALRWSSVEAV CGYGSQEAL PMRPAREGEL YFPEDREVNL VELALATNIP KGCAETAVRV HVSYLDGKGN LAPQGSVPSA VSSLTDDLLK Y YHQVTRAV LGDDPQLMKV ALQDLQTNSK IGALLPYFVY VVSGVKSVSH DLEQLHRLLQ VARSLFRNPH LCLGPYVRCL VG SVLYCVL EPLAASINPL NDHWTLRDGA ALLLSHIFWT HGDLVSGLYQ HILLSLQKIL ADPVRPLCCH YGAVVGLHAL GWK AVERVL YPHLSTYWTN LQAVLDDYSV SNAQVKADGH KVYGAILVAV ERLLKMKAQA AEPNRGGPGG RGCRRLDDLP WDSL LFQES SSGGGAEPSF GSGLPLPPGG AGPEDPSLSV TLADIYRELY AFFGDSLATR FGTGQPAPTA PRPPGDKKEP AAAPD SVRK MPQLTASAIV SPHGDESPRG SGGGGPASAS GPAASESRPL PRVHRARGAP RQQGPGTGTR DVFQKSRFAP RGAPHF RFI IAGRQAGRRC RGRLFQTAFP APYGPSPASR YVQKLPMIGR TSRPARRWAL SDYSLYLPL

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Macromolecule #10: Transcription initiation factor TFIID subunit 9

MacromoleculeName: Transcription initiation factor TFIID subunit 9 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 29.006838 KDa
SequenceString: MESGKTASPK SMPKDAQMMA QILKDMGITE YEPRVINQML EFAFRYVTTI LDDAKIYSSH AKKATVDADD VRLAIQCRAD QSFTSPPPR DFLLDIARQR NQTPLPLIKP YSGPRLPPDR YCLTAPNYRL KSLQKKASTS AGRITVPRLS VGSVTSRPST P TLGTPTPQ ...String:
MESGKTASPK SMPKDAQMMA QILKDMGITE YEPRVINQML EFAFRYVTTI LDDAKIYSSH AKKATVDADD VRLAIQCRAD QSFTSPPPR DFLLDIARQR NQTPLPLIKP YSGPRLPPDR YCLTAPNYRL KSLQKKASTS AGRITVPRLS VGSVTSRPST P TLGTPTPQ TMSVSTKVGT PMSLTGQRFT VQMPTSQSPA VKASIPATSA VQNVLINPSL IGSKNILITT NMMSSQNTAN ES SNALKRK REDDDDDDDD DDDYDNL

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Macromolecule #11: Transcription initiation factor TFIID subunit 10

MacromoleculeName: Transcription initiation factor TFIID subunit 10 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 21.731248 KDa
SequenceString: MSCSGSGADP EAAPASAASA PGPAPPVSAP AALPSSTAAE NKASPAGTAG GPGAGAAAGG TGPLAARAGE PAERRGAAPV SAGGAAPPE GAISNGVYVL PSAANGDVKP VVSSTPLVDF LMQLEDYTPT IPDAVTGYYL NRAGFEASDP RIIRLISLAA Q KFISDIAN ...String:
MSCSGSGADP EAAPASAASA PGPAPPVSAP AALPSSTAAE NKASPAGTAG GPGAGAAAGG TGPLAARAGE PAERRGAAPV SAGGAAPPE GAISNGVYVL PSAANGDVKP VVSSTPLVDF LMQLEDYTPT IPDAVTGYYL NRAGFEASDP RIIRLISLAA Q KFISDIAN DALQHCKMKG TASGSSRSKS KDRKYTLTME DLTPALSEYG INVKKPHYFT

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Macromolecule #12: Transcription initiation factor TFIID subunit 12

MacromoleculeName: Transcription initiation factor TFIID subunit 12 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 17.948467 KDa
SequenceString:
MNQFGPSALI NLSNFSSIKP EPASTPPQGS MANSTAVVKI PGTPGAGGRL SPENNQVLTK KKLQDLVREV DPNEQLDEDV EEMLLQIAD DFIESVVTAA CQLARHRKSS TLEVKDVQLH LERQWNMWIP GFGSEEIRPY KKACTTEAHK QRMALIRKTT K K

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Macromolecule #13: Unassigned sequence

MacromoleculeName: Unassigned sequence / type: protein_or_peptide / ID: 13
Details: Author stated that the EM density could not allow model building with confident chain identity
Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 1.635006 KDa
SequenceString:
(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)

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Macromolecule #14: Ataxin-7

MacromoleculeName: Ataxin-7 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human (human)
Molecular weightTheoretical: 95.597742 KDa
SequenceString: MSERAADDVR GEPRRAAAAA GGAAAAAARQ QQQQQQQQQP PPPQPQRQQH PPPPPRRTRP EDGGPGAAST SAAAMATVGE RRPLPSPEV MLGQSWNLWV EASKLPGKDG TELDESFKEF GKNREVMGLC REDMPIFGFC PAHDDFYLVV CNDCNQVVKP Q AFQSHYER ...String:
MSERAADDVR GEPRRAAAAA GGAAAAAARQ QQQQQQQQQP PPPQPQRQQH PPPPPRRTRP EDGGPGAAST SAAAMATVGE RRPLPSPEV MLGQSWNLWV EASKLPGKDG TELDESFKEF GKNREVMGLC REDMPIFGFC PAHDDFYLVV CNDCNQVVKP Q AFQSHYER RHSSSSKPPL AVPPTSVFSF FPSLSKSKGG SASGSNRSSS GGVLSASSSS SKLLKSPKEK LQLRGNTRPM HP IQQSRVP HGRIMTPSVK VEKIHPKMDG TLLKSAVGPT CPATVSSLVK PGLNCPSIPK PTLPSPGQIL NGKGLPAPPT LEK KPEDNS NNRKFLNKRL SEREFDPDIH CGVIDLDTKK PCTRSLTCKT HSLTQRRAVQ GRRKRFDVLL AEHKNKTREK ELIR HPDSQ QPPQPLRDPH PAPPRTSQEP HQNPHGVIPS ESKPFVASKP KPHTPSLPRP PGCPAQQGGS APIDPPPVHE SPHPP LPAT EPASRLSSEE GEGDDKEESV EKLDCHYSGH HPQPASFCTF GSRQIGRGYY VFDSRWNRLR CALNLMVEKH LNAQLW KKI PPVPSTTSPI STRIPHRTNS VPTSQCGVSY LAAATVSTSP VLLSSTCISP NSKSVPAHGT TLNAQPAASG AMDPVCS MQ SRQVSSSSSS PSTPSGLSSV PSSPMSRKPQ KLKSSKSLRP KESSGNSTNC QNASSSTSGG SGKKRKNSSP LLVHSSSS S SSSSSSSHSM ESFRKNCVAH SGPPYPSTVT SSHSIGLNCV TNKANAVNVR HDQSGRGPPT GSPAESIKRM SVMVNSSDS TLSLGPFIHQ SNELPVNSHG SFSHSHTPLD KLIGKKRKCS PSSSSINNSS SKPTKVAKVP AVNNVHMKHT GTIPGAQGLM NSSLLHQPK ARP

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 3.0 µm / Nominal defocus min: 0.8 µm
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Initial angle assignmentType: RANDOM ASSIGNMENT
Final angle assignmentType: ANGULAR RECONSTITUTION
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 378168
FSC plot (resolution estimation)

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