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- EMDB-31114: TFIID in canonical conformation -

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Basic information

Entry
Database: EMDB / ID: EMD-31114
TitleTFIID in canonical conformation
Map dataTFIID in canonical conformation
Sample
  • Complex: TFIID in canonical conformation
    • Protein or peptide: x 14 types
Function / homology
Function and homology information


spermine transport / negative regulation of MHC class I biosynthetic process / SAGA complex assembly / lateral mesodermal cell differentiation / DNA-templated transcription open complex formation / allantois development / pre-snoRNP complex / TFIIH-class transcription factor complex binding / negative regulation of protein autoubiquitination / transcription factor TFTC complex ...spermine transport / negative regulation of MHC class I biosynthetic process / SAGA complex assembly / lateral mesodermal cell differentiation / DNA-templated transcription open complex formation / allantois development / pre-snoRNP complex / TFIIH-class transcription factor complex binding / negative regulation of protein autoubiquitination / transcription factor TFTC complex / negative regulation of MHC class II biosynthetic process / RNA polymerase transcription factor SL1 complex / regulation of cell cycle G1/S phase transition / RNA polymerase I general transcription initiation factor activity / SLIK (SAGA-like) complex / RNA polymerase III general transcription initiation factor activity / RNA polymerase I core promoter sequence-specific DNA binding / hepatocyte differentiation / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA Polymerase III Transcription Initiation From Type 3 Promoter / positive regulation of response to cytokine stimulus / maintenance of protein location in nucleus / RNA Polymerase III Abortive And Retractive Initiation / positive regulation of androgen receptor activity / transcription factor TFIIA complex / female germ cell nucleus / C2H2 zinc finger domain binding / male pronucleus / female pronucleus / positive regulation by host of viral transcription / transcription regulator inhibitor activity / RNA polymerase II general transcription initiation factor binding / nuclear vitamin D receptor binding / RNA polymerase binding / box C/D snoRNP assembly / limb development / regulation of fat cell differentiation / RNA Polymerase I Transcription Termination / transcription preinitiation complex / SAGA complex / nuclear thyroid hormone receptor binding / inner cell mass cell proliferation / midbrain development / response to L-glutamate / cellular response to ATP / histone acetyltransferase binding / transcription factor TFIID complex / RNA polymerase II general transcription initiation factor activity / negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / 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 / RNA Polymerase I Transcription Initiation / regulation of RNA splicing / ubiquitin conjugating enzyme activity / aryl hydrocarbon receptor binding / transcription initiation at RNA polymerase I promoter / MLL1 complex / TFIIB-class transcription factor binding / transcription by RNA polymerase III / RNA polymerase II transcribes snRNA genes / negative regulation of cell cycle / P-TEFb complex binding / embryonic placenta development / somitogenesis / positive regulation of transcription initiation by RNA polymerase II / RNA polymerase II core promoter sequence-specific DNA binding / negative regulation of ubiquitin-dependent protein catabolic process / positive regulation of intrinsic apoptotic signaling pathway / regulation of DNA repair / core promoter sequence-specific DNA binding / histone acetyltransferase activity / ovarian follicle development / RNA polymerase II preinitiation complex assembly / histone acetyltransferase / negative regulation of proteasomal ubiquitin-dependent protein catabolic process / RNA Polymerase II Pre-transcription Events / estrogen receptor signaling pathway / TBP-class protein binding / response to interleukin-1 / SIRT1 negatively regulates rRNA expression / regulation of signal transduction by p53 class mediator / male germ cell nucleus / DNA-templated transcription initiation / nuclear receptor binding / nuclear estrogen receptor binding / promoter-specific chromatin binding / peptidyl-threonine phosphorylation / transcription initiation at RNA polymerase II promoter / RNA Polymerase I Promoter Escape / lysine-acetylated histone binding / negative regulation of protein kinase activity / mRNA transcription by RNA polymerase II / NoRC negatively regulates rRNA expression / euchromatin
Similarity search - Function
TAFII28-like protein domain / Transcription initiation factor TFIID subunit 11-like / hTAFII28-like protein conserved region / TAFII55 protein, conserved region / Transcription initiation factor TFIID subunit 7 / TAFII55 protein conserved region / TAFII55 protein conserved region / Transcription initiation factor TFIID subunit 2 / Transcription initiation factor TFIID subunit 8 / Transcription factor TFIID complex subunit 8 C-term ...TAFII28-like protein domain / Transcription initiation factor TFIID subunit 11-like / hTAFII28-like protein conserved region / TAFII55 protein, conserved region / Transcription initiation factor TFIID subunit 7 / TAFII55 protein conserved region / TAFII55 protein conserved region / Transcription initiation factor TFIID subunit 2 / Transcription initiation factor TFIID subunit 8 / Transcription factor TFIID complex subunit 8 C-term / Transcription factor TFIID, subunit 8, C-terminal / Transcription initiation factor TFIID component TAF4 / Transcription initiation factor TFIID component TAF4 family / Transcription initiation factor TFIID component TAF4, C-terminal / Transcription initiation factor IID, subunit 13 / Transcription initiation factor IID, 18kD subunit / TAFH/NHR1 domain superfamily / NHR1 homology to TAF / TAFH/NHR1 domain profile. / TAF homology / TAFH/NHR1 / 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 / 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 superfamily / 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 / TAFII-230 TBP-binding / Transcription initiation factor TFIID subunit 1, animal / TAFII-230 TBP-binding domain superfamily / TATA box-binding protein binding / Zinc knuckle / Zinc knuckle / Transcription initiation factor TFIID subunit 1, histone acetyltransferase domain / Transcription initiation factor TFIID subunit 1 / Protein of unknown function (DUF3591) / LIS1 homology (LisH) motif profile. / LIS1 homology motif / TATA-box binding protein, eukaryotic / TATA-box binding protein / TATA-box binding protein, conserved site / Transcription factor TFIID (or TATA-binding protein, TBP) / Transcription factor TFIID repeat signature. / Aminopeptidase N-like , N-terminal domain superfamliy / TBP domain superfamily / Peptidase M4/M1, CTD superfamily / Zinc finger, PHD-type, conserved site / PHD-finger / Zinc finger PHD-type signature. / TATA box binding protein associated factor / TATA box binding protein associated factor (TAF), histone-like fold domain / Zinc finger PHD-type profile. / Zinc finger, PHD-finger / Zinc finger, PHD-type / PHD zinc finger / Zinc finger, FYVE/PHD-type / Histone-fold / Bromodomain, conserved site / Bromodomain signature. / Bromodomain / Bromodomain profile. / bromo domain / Bromodomain / Bromodomain-like superfamily / Armadillo-type fold / G-protein beta WD-40 repeat / Zinc finger, RING/FYVE/PHD-type / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD domain, G-beta repeat / WD40 repeats / WD40 repeat / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily
Similarity search - Domain/homology
Transcription initiation factor TFIID subunit 4 / TATA-box-binding protein / Transcription initiation factor TFIID subunit 1 / Transcription initiation factor TFIID subunit 6 / Transcription initiation factor TFIID subunit 10 / Transcription initiation factor TFIID subunit 5 / Transcription initiation factor TFIID subunit 13 / Transcription initiation factor TFIID subunit 11 / Transcription initiation factor TFIID subunit 7 / Transcription initiation factor TFIID subunit 12 ...Transcription initiation factor TFIID subunit 4 / TATA-box-binding protein / Transcription initiation factor TFIID subunit 1 / Transcription initiation factor TFIID subunit 6 / Transcription initiation factor TFIID subunit 10 / Transcription initiation factor TFIID subunit 5 / Transcription initiation factor TFIID subunit 13 / Transcription initiation factor TFIID subunit 11 / Transcription initiation factor TFIID subunit 7 / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit 9 / Transcription initiation factor TFIID subunit 3 / Transcription initiation factor TFIID subunit 2 / Transcription initiation factor TFIID subunit 8
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 9.0 Å
AuthorsChen X / Wu Z / Li J / Zhao D / Xu Y
CitationJournal: Science / Year: 2021
Title: Structural insights into preinitiation complex assembly on core promoters.
Authors: Xizi Chen / Yilun Qi / Zihan Wu / Xinxin Wang / Jiabei Li / Dan Zhao / Haifeng Hou / Yan Li / Zishuo Yu / Weida Liu / Mo Wang / Yulei Ren / Ze Li / Huirong Yang / Yanhui Xu /
Abstract: Transcription factor IID (TFIID) recognizes core promoters and supports preinitiation complex (PIC) assembly for RNA polymerase II (Pol II)-mediated eukaryotic transcription. We determined the ...Transcription factor IID (TFIID) recognizes core promoters and supports preinitiation complex (PIC) assembly for RNA polymerase II (Pol II)-mediated eukaryotic transcription. We determined the structures of human TFIID-based PIC in three stepwise assembly states and revealed two-track PIC assembly: stepwise promoter deposition to Pol II and extensive modular reorganization on track I (on TATA-TFIID-binding element promoters) versus direct promoter deposition on track II (on TATA-only and TATA-less promoters). The two tracks converge at an ~50-subunit holo PIC in identical conformation, whereby TFIID stabilizes PIC organization and supports loading of cyclin-dependent kinase (CDK)-activating kinase (CAK) onto Pol II and CAK-mediated phosphorylation of the Pol II carboxyl-terminal domain. Unexpectedly, TBP of TFIID similarly bends TATA box and TATA-less promoters in PIC. Our study provides structural visualization of stepwise PIC assembly on highly diversified promoters.
History
DepositionMar 24, 2021-
Header (metadata) releaseMay 12, 2021-
Map releaseMay 12, 2021-
UpdateMay 12, 2021-
Current statusMay 12, 2021Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.0062
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.0062
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7ege
  • Surface level: 0.0062
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_31114.png

Downloads & links

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Map

FileDownload / File: emd_31114.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationTFIID in canonical conformation
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.35 Å/pix.
x 320 pix.
= 432. Å		1.35 Å/pix.
x 320 pix.
= 432. Å		1.35 Å/pix.
x 320 pix.
= 432. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.35 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0062 / Movie #1: 0.0062
Minimum - Maximum-0.014408784 - 0.042825833
Average (Standard dev.)0.00029331585 (±0.0022071581)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 432.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.351.351.35
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z432.000432.000432.000
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-0.0140.0430.000

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Supplemental data

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Sample components

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Entire : TFIID in canonical conformation

EntireName: TFIID in canonical conformation
Components
  • Complex: TFIID in canonical conformation
    • Protein or peptide: Transcription initiation factor TFIID subunit 1
    • Protein or peptide: Transcription initiation factor TFIID subunit 2
    • Protein or peptide: Transcription initiation factor TFIID subunit 4
    • Protein or peptide: Transcription initiation factor TFIID subunit 5
    • Protein or peptide: Transcription initiation factor TFIID subunit 6
    • Protein or peptide: Transcription initiation factor TFIID subunit 7
    • Protein or peptide: Transcription initiation factor TFIID subunit 8
    • 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: TATA-box-binding protein
    • Protein or peptide: Transcription initiation factor TFIID subunit 3
    • Protein or peptide: Transcription initiation factor TFIID subunit 11
    • Protein or peptide: Transcription initiation factor TFIID subunit 13

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Supramolecule #1: TFIID in canonical conformation

SupramoleculeName: TFIID in canonical conformation / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)
Recombinant expressionOrganism: Homo sapiens (human)

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Macromolecule #1: Transcription initiation factor TFIID subunit 1

MacromoleculeName: Transcription initiation factor TFIID subunit 1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: histone acetyltransferase
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 212.956172 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MGPGCDLLLR TAATITAAAI MSDTDSDEDS AGGGPFSLAG FLFGNINGAG QLEGESVLDD ECKKHLAGLG ALGLGSLITE LTANEELTG TDGALVNDEG WVRSTEDAVD YSDINEVAED ESRRYQQTMG SLQPLCHSDY DEDDYDADCE DIDCKLMPPP P PPPGPMKK ...String:
MGPGCDLLLR TAATITAAAI MSDTDSDEDS AGGGPFSLAG FLFGNINGAG QLEGESVLDD ECKKHLAGLG ALGLGSLITE LTANEELTG TDGALVNDEG WVRSTEDAVD YSDINEVAED ESRRYQQTMG SLQPLCHSDY DEDDYDADCE DIDCKLMPPP P PPPGPMKK DKDQDSITGE KVDFSSSSDS ESEMGPQEAT QAESEDGKLT LPLAGIMQHD ATKLLPSVTE LFPEFRPGKV LR FLRLFGP GKNVPSVWRS ARRKRKKKHR ELIQEEQIQE VECSVESEVS QKSLWNYDYA PPPPPEQCLS DDEITMMAPV ESK FSQSTG DIDKVTDTKP RVAEWRYGPA RLWYDMLGVP EDGSGFDYGF KLRKTEHEPV IKSRMIEEFR KLEENNGTDL LADE NFLMV TQLHWEDDII WDGEDVKHKG TKPQRASLAG WLPSSMTRNA MAYNVQQGFA ATLDDDKPWY SIFPIDNEDL VYGRW EDNI IWDAQAMPRL LEPPVLTLDP NDENLILEIP DEKEEATSNS PSKESKKESS LKKSRILLGK TGVIKEEPQQ NMSQPE VKD PWNLSNDEYY YPKQQGLRGT FGGNIIQHSI PAVELRQPFF PTHMGPIKLR QFHRPPLKKY SFGALSQPGP HSVQPLL KH IKKKAKMREQ ERQASGGGEM FFMRTPQDLT GKDGDLILAE YSEENGPLMM QVGMATKIKN YYKRKPGKDP GAPDCKYG E TVYCHTSPFL GSLHPGQLLQ AFENNLFRAP IYLHKMPETD FLIIRTRQGY YIRELVDIFV VGQQCPLFEV PGPNSKRAN THIRDFLQVF IYRLFWKSKD RPRRIRMEDI KKAFPSHSES SIRKRLKLCA DFKRTGMDSN WWVLKSDFRL PTEEEIRAMV SPEQCCAYY SMIAAEQRLK DAGYGEKSFF APEEENEEDF QMKIDDEVRT APWNTTRAFI AAMKGKCLLE VTGVADPTGC G EGFSYVKI PNKPTQQKDD KEPQPVKKTV TGTDADLRRL SLKNAKQLLR KFGVPEEEIK KLSRWEVIDV VRTMSTEQAR SG EGPMSKF ARGSRFSVAE HQERYKEECQ RIFDLQNKVL SSTEVLSTDT DSSSAEDSDF EEMGKNIENM LQNKKTSSQL SRE REEQER KELQRMLLAA GSAASGNNHR DDDTASVTSL NSSATGRCLK IYRTFRDEEG KEYVRCETVR KPAVIDAYVR IRTT KDEEF IRKFALFDEQ HREEMRKERR RIQEQLRRLK RNQEKEKLKG PPEKKPKKMK ERPDLKLKCG ACGAIGHMRT NKFCP LYYQ TNAPPSNPVA MTEEQEEELE KTVIHNDNEE LIKVEGTKIV LGKQLIESAD EVRRKSLVLK FPKQQLPPKK KRRVGT TVH CDYLNRPHKS IHRRRTDPMV TLSSILESII NDMRDLPNTY PFHTPVNAKV VKDYYKIITR PMDLQTLREN VRKRLYP SR EEFREHLELI VKNSATYNGP KHSLTQISQS MLDLCDEKLK EKEDKLARLE KAINPLLDDD DQVAFSFILD NIVTQKMM A VPDSWPFHHP VNKKFVPDYY KVIVNPMDLE TIRKNISKHK YQSRESFLDD VNLILANSVK YNGPESQYTK TAQEIVNVC YQTLTEYDEH LTQLEKDICT AKEAALEEAE LESLDPMTPG PYTPQPPDLY DTNTSLSMSR DASVFQDESN MSVLDIPSAT PEKQVTQEG EDGDGDLADE EEGTVQQPQA SVLYEDLLMS EGEDDEEDAG SDEEGDNPFS AIQLSESGSD SDVGSGGIRP K QPRMLQEN TRMDMENEES MMSYEGDGGE ASHGLEDSNI SYGSYEEPDP KSNTQDTSFS SIGGYEVSEE EEDEEEEEQR SG PSVLSQV HLSEDEEDSE DFHSIAGDSD LDSDE

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Macromolecule #2: Transcription initiation factor TFIID subunit 2

MacromoleculeName: Transcription initiation factor TFIID subunit 2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 137.159984 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MPLTGVEPAR MNRKKGDKGF ESPRPYKLTH QVVCINNINF QRKSVVGFVE LTIFPTVANL NRIKLNSKQC RIYRVRINDL EAAFIYNDP TLEVCHSESK QRNLNYFSNA YAAAVSAVDP DAGNGELCIK VPSELWKHVD ELKVLKIHIN FSLDQPKGGL H FVVPSVEG ...String:
MPLTGVEPAR MNRKKGDKGF ESPRPYKLTH QVVCINNINF QRKSVVGFVE LTIFPTVANL NRIKLNSKQC RIYRVRINDL EAAFIYNDP TLEVCHSESK QRNLNYFSNA YAAAVSAVDP DAGNGELCIK VPSELWKHVD ELKVLKIHIN FSLDQPKGGL H FVVPSVEG SMAERGAHVF SCGYQNSTRF WFPCVDSYSE LCTWKLEFTV DAAMVAVSNG DLVETVYTHD MRKKTFHYML TI PTAASNI SLAIGPFEIL VDPYMHEVTH FCLPQLLPLL KHTTSYLHEV FEFYEEILTC RYPYSCFKTV FIDEAYVEVA AYA SMSIFS TNLLHSAMII DETPLTRRCL AQSLAQQFFG CFISRMSWSD EWVLKGISGY IYGLWMKKTF GVNEYRHWIK EELD KIVAY ELKTGGVLLH PIFGGGKEKD NPASHLHFSI KHPHTLSWEY YSMFQCKAHL VMRLIENRIS MEFMLQVFNK LLSLA STAS SQKFQSHMWS QMLVSTSGFL KSISNVSGKD IQPLIKQWVD QSGVVKFYGS FAFNRKRNVL ELEIKQDYTS PGTQKY VGP LKVTVQELDG SFNHTLQIEE NSLKHDIPCH SKSRRNKKKK IPLMNGEEVD MDLSAMDADS PLLWIRIDPD MSVLRKV EF EQADFMWQYQ LRYERDVVAQ QESILALEKF PTPASRLALT DILEQEQCFY RVRMSACFCL AKIANSMVST WTGPPAMK S LFTRMFCCKS CPNIVKTNNF MSFQSYFLQK TMPVAMALLR DVHNLCPKEV LTFILDLIKY NDNRKNKFSD NYYRAEMID ALANSVTPAV SVNNEVRTLD NLNPDVRLIL EEITRFLNME KLLPSYRHTI TVSCLRAIRV LQKNGHVPSD PALFKSYAEY GHFVDIRIA ALEAVVDYTK VDRSYEELQW LLNMIQNDPV PYVRHKILNM LTKNPPFTKN MESPLCNEAL VDQLWKLMNS G TSHDWRLR CGAVDLYFTL FGLSRPSCLP LPELGLVLNL KEKKAVLNPT IIPESVAGNQ EAANNPSSHP QLVGFQNPFS SS QDEEEID MDTVHDSQAF ISHHLNMLER PSTPGLSKYR PASSRSALIP QHSAGCDSTP TTKPQWSLEL ARKGTGKEQA PLE MSMHPA ASAPLSVFTK ESTASKHSDH HHHHHHEHKK KKKKHKHKHK HKHKHDSKEK DKEPFTFSSP ASGRSIRSPS LSD

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Macromolecule #3: Transcription initiation factor TFIID subunit 4

MacromoleculeName: Transcription initiation factor TFIID subunit 4 / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 110.221883 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAAGSDLLDE VFFNSEVDEK VVSDLVGSLE SQLAASAAHH HHLAPRTPEV RAAAAGALGN HVVSGSPAGA AGAGPAAPAE GAPGAAPEP PPAGRARPGG GGPQRPGPPS PRRPLVPAGP APPAAKLRPP PEGSAGSCAP VPAAAAVAAG PEPAPAGPAK P AGPAALAA ...String:
MAAGSDLLDE VFFNSEVDEK VVSDLVGSLE SQLAASAAHH HHLAPRTPEV RAAAAGALGN HVVSGSPAGA AGAGPAAPAE GAPGAAPEP PPAGRARPGG GGPQRPGPPS PRRPLVPAGP APPAAKLRPP PEGSAGSCAP VPAAAAVAAG PEPAPAGPAK P AGPAALAA RAGPGPGPGP GPGPGPGPGK PAGPGAAQTL NGSAALLNSH HAAAPAVSLV NNGPAALLPL PKPAAPGTVI QT PPFVGAA APPAPAAPSP PAAPAPAAPA AAPPPPPPAP ATLARPPGHP AGPPTAAPAV PPPAAAQNGG SAGAAPAPAP AAG GPAGVS GQPGPGAAAA APAPGVKAES PKRVVQAAPP AAQTLAASGP ASTAASMVIG PTMQGALPSP AAVPPPAPGT PTGL PKGAA GAVTQSLSRT PTATTSGIRA TLTPTVLAPR LPQPPQNPTN IQNFQLPPGM VLVRSENGQL LMIPQQALAQ MQAQA HAQP QTTMAPRPAT PTSAPPVQIS TVQAPGTPII ARQVTPTTII KQVSQAQTTV QPSATLQRSP GVQPQLVLGG AAQTAS LGT ATAVQTGTPQ RTVPGATTTS SAATETMENV KKCKNFLSTL IKLASSGKQS TETAANVKEL VQNLLDGKIE AEDFTSR LY RELNSSPQPY LVPFLKRSLP ALRQLTPDSA AFIQQSQQQP PPPTSQATTA LTAVVLSSSV QRTAGKTAAT VTSALQPP V LSLTQPTQVG VGKQGQPTPL VIQQPPKPGA LIRPPQVTLT QTPMVALRQP HNRIMLTTPQ QIQLNPLQPV PVVKPAVLP GTKALSAVSA QAAAAQKNKL KEPGGGSFRD DDDINDVASM AGVNLSEESA RILATNSELV GTLTRSCKDE TFLLQAPLQR RILEIGKKH GITELHPDVV SYVSHATQQR LQNLVEKISE TAQQKNFSYK DDDRYEQASD VRAQLKFFEQ LDQIEKQRKD E QEREILMR AAKSRSRQED PEQLRLKQKA KEMQQQELAQ MRQRDANLTA LAAIGPRKKR KVDCPGPGSG AEGSGPGSVV PG SSGVGTP RQFTRQRITR VNLRDLIFCL ENERETSHSL LLYKAFLK

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Macromolecule #4: Transcription initiation factor TFIID subunit 5

MacromoleculeName: Transcription initiation factor TFIID subunit 5 / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 86.932109 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAALAEEQTE VAVKLEPEGP PTLLPPQAGD GAGEGSGGTT NNGPNGGGGN VAASSSTGGD GGTPKPTVAV SAAAPAGAAP VPAAAPDAG APHDRQTLLA VLQFLRQSKL REAEEALRRE AGLLEEAVAG SGAPGEVDSA GAEVTSALLS RVTASAPGPA A PDPPGTGA ...String:
MAALAEEQTE VAVKLEPEGP PTLLPPQAGD GAGEGSGGTT NNGPNGGGGN VAASSSTGGD GGTPKPTVAV SAAAPAGAAP VPAAAPDAG APHDRQTLLA VLQFLRQSKL REAEEALRRE AGLLEEAVAG SGAPGEVDSA GAEVTSALLS RVTASAPGPA A PDPPGTGA SGATVVSGSA SGPAAPGKVG SVAVEDQPDV SAVLSAYNQQ GDPTMYEEYY SGLKHFIECS LDCHRAELSQ LF YPLFVHM YLELVYNQHE NEAKSFFEKF HGDQECYYQD DLRVLSSLTK KEHMKGNETM LDFRTSKFVL RISRDSYQLL KRH LQEKQN NQIWNIVQEH LYIDIFDGMP RSKQQIDAMV GSLAGEAKRE ANKSKVFFGL LKEPEIEVPL DDEDEEGENE EGKP KKKKP KKDSIGSKSK KQDPNAPPQN RIPLPELKDS DKLDKIMNMK ETTKRVRLGP DCLPSICFYT FLNAYQGLTA VDVTD DSSL IAGGFADSTV RVWSVTPKKL RSVKQASDLS LIDKESDDVL ERIMDEKTAS ELKILYGHSG PVYGASFSPD RNYLLS SSE DGTVRLWSLQ TFTCLVGYKG HNYPVWDTQF SPYGYYFVSG GHDRVARLWA TDHYQPLRIF AGHLADVNCT RFHPNSN YV ATGSADRTVR LWDVLNGNCV RIFTGHKGPI HSLTFSPNGR FLATGATDGR VLLWDIGHGL MVGELKGHTD TVCSLRFS R DGEILASGSM DNTVRLWDAI KAFEDLETDD FTTATGHINL PENSQELLLG TYMTKSTPVV HLHFTRRNLV LAAGAYSPQ

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Macromolecule #5: Transcription initiation factor TFIID subunit 6

MacromoleculeName: Transcription initiation factor TFIID subunit 6 / type: protein_or_peptide / ID: 5 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 72.749297 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAEEKKLKLS NTVLPSESMK VVAESMGIAQ IQEETCQLLT DEVSYRIKEI AQDALKFMHM GKRQKLTTSD IDYALKLKNV EPLYGFHAQ EFIPFRFASG GGRELYFYEE KEVDLSDIIN TPLPRVPLDV CLKAHWLSIE GCQPAIPENP PPAPKEQQKA E ATEPLKSA ...String:
MAEEKKLKLS NTVLPSESMK VVAESMGIAQ IQEETCQLLT DEVSYRIKEI AQDALKFMHM GKRQKLTTSD IDYALKLKNV EPLYGFHAQ EFIPFRFASG GGRELYFYEE KEVDLSDIIN TPLPRVPLDV CLKAHWLSIE GCQPAIPENP PPAPKEQQKA E ATEPLKSA KPGQEEDGPL KGKGQGATTA DGKGKEKKAP PLLEGAPLRL KPRSIHELSV EQQLYYKEIT EACVGSCEAK RA EALQSIA TDPGLYQMLP RFSTFISEGV RVNVVQNNLA LLIYLMRMVK ALMDNPTLYL EKYVHELIPA VMTCIVSRQL CLR PDVDNH WALRDFAARL VAQICKHFST TTNNIQSRIT KTFTKSWVDE KTPWTTRYGS IAGLAELGHD VIKTLILPRL QQEG ERIRS VLDGPVLSNI DRIGADHVQS LLLKHCAPVL AKLRPPPDNQ DAYRAEFGSL GPLLCSQVVK ARAQAALQAQ QVNRT TLTI TQPRPTLTLS QAPQPGPRTP GLLKVPGSIA LPVQTLVSAR AAAPPQPSPP PTKFIVMSSS SSAPSTQQVL SLSTSA PGS GSTTTSPVTT TVPSVQPIVK LVSTATTAPP STAPSGPGSV QKYIVVSLPP TGEGKGGPTS HPSPVPPPAS SPSPLSG SA LCGGKQEAGD SPPPAPGTPK ANGSQPNSGS PQPAP

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Macromolecule #6: Transcription initiation factor TFIID subunit 7

MacromoleculeName: Transcription initiation factor TFIID subunit 7 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 40.325117 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSKSKDDAPH ELESQFILRL PPEYASTVRR AVQSGHVNLK DRLTIELHPD GRHGIVRVDR VPLASKLVDL PCVMESLKTI DKKTFYKTA DICQMLVSTV DGDLYPPVEE PVASTDPKAS KKKDKDKEKK FIWNHGITLP LKNVRKRRFR KTAKKKYIES P DVEKEVKR ...String:
MSKSKDDAPH ELESQFILRL PPEYASTVRR AVQSGHVNLK DRLTIELHPD GRHGIVRVDR VPLASKLVDL PCVMESLKTI DKKTFYKTA DICQMLVSTV DGDLYPPVEE PVASTDPKAS KKKDKDKEKK FIWNHGITLP LKNVRKRRFR KTAKKKYIES P DVEKEVKR LLSTDAEAVS TRWEIIAEDE TKEAENQGLD ISSPGMSGHR QGHDSLEHDE LREIFNDLSS SSEDEDETQH QD EEDINII DTEEDLERQL QDKLNESDEQ HQENEGTNQL VMGIQKQIDN MKGKLQETQD RAKRQEDLIM KVENLALKNR FQA VLDELK QKEDREKEQL SSLQEELESL LEK

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Macromolecule #7: Transcription initiation factor TFIID subunit 8

MacromoleculeName: Transcription initiation factor TFIID subunit 8 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 34.304359 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MADAAATAGA GGSGTRSGSK QSTNPADNYH LARRRTLQVV VSSLLTEAGF ESAEKASVET LTEMLQSYIS EIGRSAKSYC EHTARTQPT LSDIVVTLVE MGFNVDTLPA YAKRSQRMVI TAPPVTNQPV TPKALTAGQN RPHPPHIPSH FPEFPDPHTY I KTPTYREP ...String:
MADAAATAGA GGSGTRSGSK QSTNPADNYH LARRRTLQVV VSSLLTEAGF ESAEKASVET LTEMLQSYIS EIGRSAKSYC EHTARTQPT LSDIVVTLVE MGFNVDTLPA YAKRSQRMVI TAPPVTNQPV TPKALTAGQN RPHPPHIPSH FPEFPDPHTY I KTPTYREP VSDYQVLREK AASQRRDVER ALTRFMAKTG ETQSLFKDDV STFPLIAARP FTIPYLTALL PSELEMQQME ET DSSEQDE QTDTENLALH ISMEDSGAEK ENTSVLQQNP SLSGSRNGEE NIIDNPYLRP VKKPKIRRKK SLS

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Macromolecule #8: Transcription initiation factor TFIID subunit 9

MacromoleculeName: Transcription initiation factor TFIID subunit 9 / type: protein_or_peptide / ID: 8 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 29.006838 KDa
Recombinant expressionOrganism: Homo sapiens (human)
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 #9: Transcription initiation factor TFIID subunit 10

MacromoleculeName: Transcription initiation factor TFIID subunit 10 / type: protein_or_peptide / ID: 9 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 21.731248 KDa
Recombinant expressionOrganism: Homo sapiens (human)
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 #10: Transcription initiation factor TFIID subunit 12

MacromoleculeName: Transcription initiation factor TFIID subunit 12 / type: protein_or_peptide / ID: 10 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 17.948467 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
MNQFGPSALI NLSNFSSIKP EPASTPPQGS MANSTAVVKI PGTPGAGGRL SPENNQVLTK KKLQDLVREV DPNEQLDEDV EEMLLQIAD DFIESVVTAA CQLARHRKSS TLEVKDVQLH LERQWNMWIP GFGSEEIRPY KKACTTEAHK QRMALIRKTT K K

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Macromolecule #11: TATA-box-binding protein

MacromoleculeName: TATA-box-binding protein / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 37.729938 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDQNNSLPPY AQGLASPQGA MTPGIPIFSP MMPYGTGLTP QPIQNTNSLS ILEEQQRQQQ QQQQQQQQQQ QQQQQQQQQQ QQQQQQQQQ QQQQQQAVAA AAVQQSTSQQ ATQGTSGQAP QLFHSQTLTT APLPGTTPLY PSPMTPMTPI TPATPASESS G IVPQLQNI ...String:
MDQNNSLPPY AQGLASPQGA MTPGIPIFSP MMPYGTGLTP QPIQNTNSLS ILEEQQRQQQ QQQQQQQQQQ QQQQQQQQQQ QQQQQQQQQ QQQQQQAVAA AAVQQSTSQQ ATQGTSGQAP QLFHSQTLTT APLPGTTPLY PSPMTPMTPI TPATPASESS G IVPQLQNI VSTVNLGCKL DLKTIALRAR NAEYNPKRFA AVIMRIREPR TTALIFSSGK MVCTGAKSEE QSRLAARKYA RV VQKLGFP AKFLDFKIQN MVGSCDVKFP IRLEGLVLTH QQFSSYEPEL FPGLIYRMIK PRIVLLIFVS GKVVLTGAKV RAE IYEAFE NIYPILKGFR KTT

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Macromolecule #12: Transcription initiation factor TFIID subunit 3

MacromoleculeName: Transcription initiation factor TFIID subunit 3 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 103.76932 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MCESYSRSLL RVSVAQICQA LGWDSVQLSA CHLLTDVLQR YLQQLGRGCH RYSELYGRTD PILDDVGEAF QLMGVSLHEL EDYIHNIEP VTFPHQIPSF PVSKNNVLQF PQPGSKDAEE RKEYIPDYLP PIVSSQEEEE EEQVPTDGGT SAEAMQVPLE E DDELEEEE ...String:
MCESYSRSLL RVSVAQICQA LGWDSVQLSA CHLLTDVLQR YLQQLGRGCH RYSELYGRTD PILDDVGEAF QLMGVSLHEL EDYIHNIEP VTFPHQIPSF PVSKNNVLQF PQPGSKDAEE RKEYIPDYLP PIVSSQEEEE EEQVPTDGGT SAEAMQVPLE E DDELEEEE IINDENFLGK RPLDSPEAEE LPAMKRPRLL STKGDTLDVV LLEAREPLSS INTQKIPPML SPVHVQDSTD LA PPSPEPP MLAPVAKSQM PTAKPLETKS FTPKTKTKTS SPGQKTKSPK TAQSPAMVGS PIRSPKTVSK EKKSPGRSKS PKS PKSPKV TTHIPQTPVR PETPNRTPSA TLSEKISKET IQVKQIQTPP DAGKLNSENQ PKKAVVADKT IEASIDAVIA RACA EREPD PFEFSSGSES EGDIFTSPKR ISGPECTTPK ASTSANNFTK SGSTPLPLSG GTSSSDNSWT MDASIDEVVR KAKLG TPSN MPPNFPYISS PSVSPPTPEP LHKVYEEKTK LPSSVEVKKK LKKELKTKMK KKEKQRDRER EKDKNKDKSK EKDKVK EKE KDKETGRETK YPWKEFLKEE EADPYKFKIK EFEDVDPKVK LKDGLVRKEK EKHKDKKKDR EKGKKDKDKR EKEKVKD KG REDKMKAPAP PLVLPPKELA LPLFSPATAS RVPAMLPSLL PVLPEKLFEE KEKVKEKEKK KDKKEKKKKK EKEKEKKE K EREKEKRERE KREKEKEKHK HEKIKVEPVA LAPSPVIPRL TLRVGAGQDK IVISKVVPAP EAKPAPSQNR PKTPPPAPA PAPGPMLVSP APVPLPLLAQ AAAGPALLPS PGPAASGASA KAPVRSVVTE TVSTYVIRDE WGNQIWICPG CNKPDDGSPM IGCDDCDDW YHWPCVGIMT APPEEMQWFC PKCANKKKDK KHKKRKHRAH

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Macromolecule #13: Transcription initiation factor TFIID subunit 11

MacromoleculeName: Transcription initiation factor TFIID subunit 11 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.340094 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDDAHESPSD KGGETGESDE TAAVPGDPGA TDTDGIPEET DGDADVDLKE AAAEEGELES QDVSDLTTVE REDSSLLNPA AKKLKIDTK EKKEKKQKVD EDEIQKMQIL VSSFSEEQLN RYEMYRRSAF PKAAIKRLIQ SITGTSVSQN VVIAMSGISK V FVGEVVEE ...String:
MDDAHESPSD KGGETGESDE TAAVPGDPGA TDTDGIPEET DGDADVDLKE AAAEEGELES QDVSDLTTVE REDSSLLNPA AKKLKIDTK EKKEKKQKVD EDEIQKMQIL VSSFSEEQLN RYEMYRRSAF PKAAIKRLIQ SITGTSVSQN VVIAMSGISK V FVGEVVEE ALDVCEKWGE MPPLQPKHMR EAVRRLKSKG QIPNSKHKKI IFF

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Macromolecule #14: Transcription initiation factor TFIID subunit 13

MacromoleculeName: Transcription initiation factor TFIID subunit 13 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 14.307068 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
MADEEEDPTF EEENEEIGGG AEGGQGKRKR LFSKELRCMM YGFGDDQNPY TESVDILEDL VIEFITEMTH KAMSIGRQGR VQVEDIVFL IRKDPRKFAR VKDLLTMNEE LKRARKAFDE ANYGS

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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: 7.9
GridModel: Quantifoil R1.2/1.3 / Material: GOLD / Support film - Material: CARBON / Support film - topology: CONTINUOUS
VitrificationCryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionResolution.type: BY AUTHOR / Resolution: 9.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 66920
Initial angle assignmentType: OTHER
Final angle assignmentType: MAXIMUM LIKELIHOOD

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Atomic model buiding 1

RefinementProtocol: RIGID BODY FIT
Output model

PDB-7ege:
TFIID in canonical conformation

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