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- EMDB-9298: Human TFIID BC core -

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Basic information

Entry
Database: EMDB / ID: EMD-9298
TitleHuman TFIID BC core
Map dataprimary map
Sample
  • Complex: General transcription factor IID
    • 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 6
    • 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: poly(UNK)
KeywordsTranscription / DNA / Nuclear
Function / homology
Function and homology information


response to paraquat / SAGA complex assembly / lateral mesodermal cell differentiation / DNA-templated transcription open complex formation / allantois development / pre-snoRNP complex / transcription factor TFTC complex / SLIK (SAGA-like) complex / positive regulation of response to cytokine stimulus / SAGA complex ...response to paraquat / SAGA complex assembly / lateral mesodermal cell differentiation / DNA-templated transcription open complex formation / allantois development / pre-snoRNP complex / transcription factor TFTC complex / SLIK (SAGA-like) complex / positive regulation of response to cytokine stimulus / SAGA complex / C2H2 zinc finger domain binding / maintenance of protein location in nucleus / regulation of fat cell differentiation / RNA polymerase binding / box C/D snoRNP assembly / transcription preinitiation complex / negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / transcription factor TFIID complex / RNA polymerase II general transcription initiation factor activity / somitogenesis / 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 / limb development / embryonic placenta development / regulation of RNA splicing / aryl hydrocarbon receptor binding / negative regulation of cell cycle / MLL1 complex / RNA polymerase II transcribes snRNA genes / male germ cell nucleus / positive regulation of transcription initiation by RNA polymerase II / ovarian follicle development / RNA polymerase II preinitiation complex assembly / positive regulation of intrinsic apoptotic signaling pathway / RNA Polymerase II Pre-transcription Events / negative regulation of proteasomal ubiquitin-dependent protein catabolic process / response to interleukin-1 / TBP-class protein binding / regulation of DNA repair / nuclear estrogen receptor binding / promoter-specific chromatin binding / DNA-templated transcription initiation / transcription initiation at RNA polymerase II promoter / mRNA transcription by RNA polymerase II / G2/M transition of mitotic cell cycle / p53 binding / transcription by RNA polymerase II / HATs acetylate histones / ATPase binding / DNA-binding transcription factor binding / Regulation of TP53 Activity through Phosphorylation / cell differentiation / transcription coactivator activity / protein stabilization / transcription cis-regulatory region binding / Ub-specific processing proteases / positive regulation of apoptotic process / chromatin remodeling / protein heterodimerization activity / negative regulation of cell population proliferation / chromatin binding / apoptotic process / regulation of transcription by RNA polymerase II / DNA damage response / regulation of DNA-templated transcription / negative regulation of apoptotic process / positive regulation of DNA-templated transcription / chromatin / perinuclear region of cytoplasm / enzyme binding / positive regulation of transcription by RNA polymerase II / protein-containing complex / DNA binding / nucleoplasm / identical protein binding / nucleus / cytosol / cytoplasm
Similarity search - Function
: / : / TAF2 Ig-like domain / TAF2-like, TPR repeats / 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 ...: / : / TAF2 Ig-like domain / TAF2-like, TPR repeats / 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 / TAFH/NHR1 domain superfamily / NHR1 homology to TAF / TAFH/NHR1 domain profile. / TAF homology / TAFH/NHR1 / : / Transcription initiation factor IID, 31kD subunit / Bromodomain transcription factors and PHD domain containing proteins / Transcription initiation factor TAFII31 / Bromodomain associated / Bromodomain associated domain / TFIID subunit TAF5, NTD2 domain superfamily / WD40 associated region in TFIID subunit, NTD2 domain / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit A / TATA box binding protein associated factor (TAF) / TFIID subunit TAF5, NTD2 domain / Transcription initiation factor TFIID subunit 6 / TAF6, C-terminal HEAT repeat domain superfamily / TAF6 C-terminal HEAT repeat domain / Transcription initiation factor TFIID subunit 12 domain / TAF6, C-terminal HEAT repeat domain / Transcription initiation factor TFIID 23-30kDa subunit / Transcription initiation factor TFIID, 23-30kDa subunit / LIS1 homology (LisH) motif profile. / LIS1 homology motif / Aminopeptidase N-like , N-terminal domain superfamliy / Peptidase M4/M1, CTD superfamily / TATA box binding protein associated factor / TATA box binding protein associated factor (TAF), histone-like fold domain / Histone-fold / WD domain, G-beta repeat / Armadillo-type fold / G-protein beta WD-40 repeat / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / 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 / Transcription initiation factor TFIID subunit 6 / Transcription initiation factor TFIID subunit 10 / Transcription initiation factor TFIID subunit 5 / Transcription initiation factor TFIID subunit 12 / Transcription initiation factor TFIID subunit 9 / 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: 4.5 Å
AuthorsPatel AB / Louder RK
Funding support United States, 2 items
OrganizationGrant numberCountry
Howard Hughes Medical Institute (HHMI) United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01-GM63072 United States
CitationJournal: Science / Year: 2018
Title: Structure of human TFIID and mechanism of TBP loading onto promoter DNA.
Authors: Avinash B Patel / Robert K Louder / Basil J Greber / Sebastian Grünberg / Jie Luo / Jie Fang / Yutong Liu / Jeff Ranish / Steve Hahn / Eva Nogales /
Abstract: The general transcription factor IID (TFIID) is a critical component of the eukaryotic transcription preinitiation complex (PIC) and is responsible for recognizing the core promoter DNA and ...The general transcription factor IID (TFIID) is a critical component of the eukaryotic transcription preinitiation complex (PIC) and is responsible for recognizing the core promoter DNA and initiating PIC assembly. We used cryo-electron microscopy, chemical cross-linking mass spectrometry, and biochemical reconstitution to determine the complete molecular architecture of TFIID and define the conformational landscape of TFIID in the process of TATA box-binding protein (TBP) loading onto promoter DNA. Our structural analysis revealed five structural states of TFIID in the presence of TFIIA and promoter DNA, showing that the initial binding of TFIID to the downstream promoter positions the upstream DNA and facilitates scanning of TBP for a TATA box and the subsequent engagement of the promoter. Our findings provide a mechanistic model for the specific loading of TBP by TFIID onto the promoter.
History
DepositionNov 5, 2018-
Header (metadata) releaseNov 28, 2018-
Map releaseNov 28, 2018-
UpdateMay 28, 2025-
Current statusMay 28, 2025Processing site: RCSB / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.06
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.06
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6mzc
  • Surface level: 0.06
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_9298.png

Downloads & links

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Map

FileDownload / File: emd_9298.map.gz / Format: CCP4 / Size: 91.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationprimary map
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.32 Å/pix.
x 288 pix.
= 380.16 Å		1.32 Å/pix.
x 288 pix.
= 380.16 Å		1.32 Å/pix.
x 288 pix.
= 380.16 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.32 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.06 / Movie #1: 0.06
Minimum - Maximum-0.18295214 - 0.30254063
Average (Standard dev.)0.00033880837 (±0.005484348)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions288288288
Spacing288288288
CellA=B=C: 380.16 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.321.321.32
M x/y/z288288288
origin x/y/z0.0000.0000.000
length x/y/z380.160380.160380.160
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS288288288
D min/max/mean-0.1830.3030.000

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Supplemental data

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Half map: half-volume P1

Fileemd_9298_half_map_1.map
Annotationhalf-volume_P1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half-volume P2

Fileemd_9298_half_map_2.map
Annotationhalf-volume_P2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : General transcription factor IID

EntireName: General transcription factor IID
Components
  • Complex: General transcription factor IID
    • 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 6
    • 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: poly(UNK)

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Supramolecule #1: General transcription factor IID

SupramoleculeName: General transcription factor IID / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human) / Strain: HeLa

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Macromolecule #1: Transcription initiation factor TFIID subunit 2

MacromoleculeName: Transcription initiation factor TFIID subunit 2 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 137.159984 KDa
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

UniProtKB: Transcription initiation factor TFIID subunit 2

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Macromolecule #2: Transcription initiation factor TFIID subunit 4

MacromoleculeName: Transcription initiation factor TFIID subunit 4 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 110.221883 KDa
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

UniProtKB: Transcription initiation factor TFIID subunit 4

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Macromolecule #3: Transcription initiation factor TFIID subunit 5

MacromoleculeName: Transcription initiation factor TFIID subunit 5 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 85.785164 KDa
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 RV(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)KILYGH SGPVYGASFS PDRN YLLSS SEDGTVRLWS LQTFTCLVGY KGHNYPVWDT QFSPYGYYFV SGGHDRVARL WATDHYQPLR IFAGHLADVN CTRFH PNSN YVATGSADRT VRLWDVLNGN CVRIFTGHKG PIHSLTFSPN GRFLATGATD GRVLLWDIGH GLMVGELKGH TDTVCS LRF SRDGEILASG SMDNTVRLWD AIKAFEDLET DDFTTATGHI NLPENSQELL LGTYMTKSTP VVHLHFTRRN LVLAAGA YS PQ

UniProtKB: Transcription initiation factor TFIID subunit 5

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Macromolecule #4: Transcription initiation factor TFIID subunit 6

MacromoleculeName: Transcription initiation factor TFIID subunit 6 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 72.749297 KDa
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

UniProtKB: Transcription initiation factor TFIID subunit 6

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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: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 72.365836 KDa
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 PLLEGAPL(UNK)(UNK) (UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)S VEQQLYYKEI TEACVGSCEA KRAEALQSIA TDPGLYQMLP RFSTFISEGV RVNVVQNNL ALLIYLMRMV KALMDNPTLY LEKYVHELIP AVMTCIVSRQ LCLRPDVDNH WALRDFAARL VAQICKHFST TTNNIQSRIT KTFTKSWVD EKTPWTTRYG SIAGLAELGH DVIKTLILPR LQQEGERIRS VLDGPVLSNI DRIGADHVQS LLLKHCAPVL A KLRPPPDN QDAYRAEFGS LGPLLCSQVV KARAQAALQA QQVNRTTLTI TQPRPTLTLS QAPQPGPRTP GLLKVPGSIA LP VQTLVSA RAAAPPQPSP PPTKFIVMSS SSSAPSTQQV LSLSTSAPGS GSTTTSPVTT TVPSVQPIVK LVSTATTAPP STA PSGPGS VQKYIVVSLP PTGEGKGGPT SHPSPVPPPA SSPSPLSGSA LCGGKQEAGD SPPPAPGTPK ANGSQPNSGS PQPA P

UniProtKB: Transcription initiation factor TFIID subunit 6

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Macromolecule #6: Transcription initiation factor TFIID subunit 8

MacromoleculeName: Transcription initiation factor TFIID subunit 8 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 32.975344 KDa
SequenceString: MADAAATAGA GGSGTRSGSK QSTNPADNYH LARRRTLQVV VSSLLTEAGF ESAEKASVET LTEMLQSYIS EIGRSAKSYC EHTARTQPT LSDIVVTLVE MGFNVDTLPA YAKRSQRMVI T(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) ...String:
MADAAATAGA GGSGTRSGSK QSTNPADNYH LARRRTLQVV VSSLLTEAGF ESAEKASVET LTEMLQSYIS EIGRSAKSYC EHTARTQPT LSDIVVTLVE MGFNVDTLPA YAKRSQRMVI T(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)YQVLR EKAASQRRDV ERALTRFMAK TGETQSLFK DDVSTFPLIA ARPFTIPYLT ALLPSELEMQ QMEETDSSEQ DEQTDTENLA LHISMEDSGA EKENTSVLQQ N PSLSGSRN GEENIIDNPY LRPVKKPKIR RKKSLS

UniProtKB: Transcription initiation factor TFIID subunit 8, Transcription initiation factor TFIID subunit 8

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Macromolecule #7: Transcription initiation factor TFIID subunit 9

MacromoleculeName: Transcription initiation factor TFIID subunit 9 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 28.830689 KDa
SequenceString: MESGKTASPK SMPKDAQMMA QILKDMGITE YEPRVINQML EFAFRYVTTI LDDAKIYSSH AKKATVDADD VRLAIQCRAD QSFTSPPPR DFLLDIARQR NQTPLPLIKP (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)PDR YCLTAPNYRL KSL QKKAST ...String:
MESGKTASPK SMPKDAQMMA QILKDMGITE YEPRVINQML EFAFRYVTTI LDDAKIYSSH AKKATVDADD VRLAIQCRAD QSFTSPPPR DFLLDIARQR NQTPLPLIKP (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)PDR YCLTAPNYRL KSL QKKAST SAGRITVPRL SVGSVTSRPS TPTLGTPTPQ TMSVSTKVGT PMSLTGQRFT VQMPTSQSPA VKASIPATSA VQNV LINPS LIGSKNILIT TNMMSSQNTA NESSNALKRK REDDDDDDDD DDDYDNL

UniProtKB: Transcription initiation factor TFIID subunit 9, Transcription initiation factor TFIID subunit 9

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Macromolecule #8: Transcription initiation factor TFIID subunit 10

MacromoleculeName: Transcription initiation factor TFIID subunit 10 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (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

UniProtKB: Transcription initiation factor TFIID subunit 10

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Macromolecule #9: Transcription initiation factor TFIID subunit 12

MacromoleculeName: Transcription initiation factor TFIID subunit 12 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (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

UniProtKB: Transcription initiation factor TFIID subunit 12

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Macromolecule #10: poly(UNK)

MacromoleculeName: poly(UNK) / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 20.272906 KDa
SequenceString: (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK) ...String:
(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)

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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

Concentration.2 mg/mL
BufferpH: 7.9
Component:
ConcentrationFormula
20.0 mMHEPES
0.1 mMEDTA
5.0 mMMgCl
2.0 %Glycerol
1.0 %Trehalose
100.0 mMKCl
0.01 %NP-40
GridSupport film - #0 - Film type ID: 1 / Support film - #0 - Material: CARBON / Support film - #0 - topology: HOLEY / Support film - #0 - Film thickness: 25 / Support film - #1 - Film type ID: 2 / Support film - #1 - Material: CARBON / Support film - #1 - topology: CONTINUOUS / Support film - #1 - Film thickness: 2 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 10 sec. / Pretreatment - Atmosphere: AIR / Pretreatment - Pressure: 0.05 kPa / Details: Treated with PEI
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV / Details: BT 4s; BF 15N.

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Electron microscopy

MicroscopeFEI TITAN
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 40.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm
Sample stageSpecimen holder model: GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER
Cooling holder cryogen: NITROGEN

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Image processing

CTF correctionSoftware - Name: Gctf / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 4.5 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 266328
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION

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