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- EMDB-33424: RNA polymerase II elongation complex transcribing a nucleosome (EC42) -

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Basic information

Entry
Database: EMDB / ID: EMD-33424
TitleRNA polymerase II elongation complex transcribing a nucleosome (EC42)
Map data
Sample
  • Complex: RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C
    • Complex: RNA polymerase II
      • Protein or peptide: x 12 types
    • Complex: Elf1,Spt4/5,Spn1 and Paf1C
      • Protein or peptide: x 9 types
    • Complex: DNA,RNA
      • DNA: x 2 types
      • RNA: x 1 types
    • Complex: histone
      • Protein or peptide: x 4 types
    • Complex: Spt6
      • Protein or peptide: x 1 types
  • Ligand: x 2 types
Keywordschromatin / nucleosome / TRANSCRIPTION
Function / homology
Function and homology information


snoRNA transcription by RNA polymerase II / regulation of transcription initiation by RNA polymerase II / negative regulation of transcription elongation by RNA polymerase I / sno(s)RNA 3'-end processing / positive regulation of transcription elongation by RNA polymerase I / mating-type region heterochromatin / transcription antitermination factor activity, DNA binding / regulation of septum digestion after cytokinesis / RNA polymerase II C-terminal domain phosphoserine binding / regulation of transcription-coupled nucleotide-excision repair ...snoRNA transcription by RNA polymerase II / regulation of transcription initiation by RNA polymerase II / negative regulation of transcription elongation by RNA polymerase I / sno(s)RNA 3'-end processing / positive regulation of transcription elongation by RNA polymerase I / mating-type region heterochromatin / transcription antitermination factor activity, DNA binding / regulation of septum digestion after cytokinesis / RNA polymerase II C-terminal domain phosphoserine binding / regulation of transcription-coupled nucleotide-excision repair / triplex DNA binding / Cdc73/Paf1 complex / co-transcriptional lncRNA 3' end processing, cleavage and polyadenylation pathway / siRNA-mediated pericentric heterochromatin formation / regulation of mRNA 3'-end processing / RNA polymerase I core binding / DSIF complex / regulation of rRNA processing / intracellular mRNA localization / RNA polymerase I general transcription initiation factor binding / rDNA binding / rDNA heterochromatin / negative regulation of DNA recombination / transcription elongation factor complex / intracellular phosphate ion homeostasis / negative regulation of mitophagy / transcription elongation-coupled chromatin remodeling / snRNP binding / mRNA 3'-end processing / U4 snRNA binding / transcription elongation factor activity / chromatin-protein adaptor activity / cellular response to stress / poly(A)+ mRNA export from nucleus / kinetochore assembly / nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / positive regulation of nuclear-transcribed mRNA poly(A) tail shortening / spliceosomal complex assembly / RNA polymerase II complex binding / termination of RNA polymerase II transcription / U5 snRNA binding / 7-methylguanosine mRNA capping / termination of RNA polymerase I transcription / maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II / transcription initiation at RNA polymerase I promoter / positive regulation of translational initiation / mitotic metaphase chromosome alignment / U2 snRNA binding / nuclear-transcribed mRNA catabolic process / U6 snRNA binding / negative regulation of tumor necrosis factor-mediated signaling pathway / translation elongation factor activity / U1 snRNA binding / pericentric heterochromatin / RNA polymerase II core promoter sequence-specific DNA binding / termination of RNA polymerase III transcription / transcription initiation at RNA polymerase III promoter / RNA polymerase I complex / nucleosome binding / RNA polymerase III complex / negative regulation of megakaryocyte differentiation / RNA polymerase II, core complex / transcription elongation by RNA polymerase I / tRNA transcription by RNA polymerase III / protein localization to CENP-A containing chromatin / transcription by RNA polymerase I / Replacement of protamines by nucleosomes in the male pronucleus / Packaging Of Telomere Ends / transcription-coupled nucleotide-excision repair / translation initiation factor binding / Recognition and association of DNA glycosylase with site containing an affected purine / Cleavage of the damaged purine / positive regulation of autophagy / negative regulation of autophagy / telomere organization / Deposition of new CENPA-containing nucleosomes at the centromere / Recognition and association of DNA glycosylase with site containing an affected pyrimidine / Cleavage of the damaged pyrimidine / translesion synthesis / transcription initiation-coupled chromatin remodeling / RNA Polymerase I Promoter Opening / Inhibition of DNA recombination at telomere / Assembly of the ORC complex at the origin of replication / SUMOylation of chromatin organization proteins / Regulation of endogenous retroelements by the Human Silencing Hub (HUSH) complex / Meiotic synapsis / DNA methylation / Condensation of Prophase Chromosomes / Chromatin modifications during the maternal to zygotic transition (MZT) / SIRT1 negatively regulates rRNA expression / HCMV Late Events / ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression / PRC2 methylates histones and DNA / Regulation of endogenous retroelements by KRAB-ZFP proteins / G1/S transition of mitotic cell cycle / Defective pyroptosis / HDACs deacetylate histones / positive regulation of transcription elongation by RNA polymerase II / Transcriptional regulation by small RNAs / lipopolysaccharide binding
Similarity search - Function
: / Spt6, S1/OB domain / : / Plus-3 domain / Plus3-like superfamily / Plus-3 domain / Plus3 domain profile. / Short conserved domain in transcriptional regulators. / Leo1-like protein / Leo1-like protein ...: / Spt6, S1/OB domain / : / Plus-3 domain / Plus3-like superfamily / Plus-3 domain / Plus3 domain profile. / Short conserved domain in transcriptional regulators. / Leo1-like protein / Leo1-like protein / Spt5 C-terminal nonapeptide repeat binding Spt4 / RNA polymerase II associated factor Paf1 / Paf1 / Cdc73/Parafibromin / RNA polymerase-associated protein Ctr9 / Cell division control protein 73, C-terminal / Cell division control protein 73, C-terminal domain superfamily / RNA pol II accessory factor, Cdc73 family, C-terminal / Transcription elongation factor 1 / Transcription elongation factor 1 superfamily / Transcription elongation factor Elf1 like / Spt6 acidic, N-terminal domain / Helix-turn-helix DNA-binding domain of Spt6 / Transcription elongation factor Spt6, YqgF domain / Transcription elongation factor Spt6, helix-hairpin-helix motif / Spt6, SH2 domain, C terminus / Acidic N-terminal SPT6 / Helix-hairpin-helix motif / Holliday-junction resolvase-like of SPT6 / Helix-turn-helix DNA-binding domain of SPT6 / Tex-like protein, HTH domain superfamily / Tex-like domain superfamily / Spt6, Death-like domain / : / Tex central region-like / Transcription elongation factor Spt6 / Spt6, SH2 domain, N terminus / Spt6, SH2 domain / SH2 domain / YqgF/RNase H-like domain superfamily / Transcription initiation Spt4 / Spt4 superfamily / TFIIS N-terminal domain profile. / TFIIS helical bundle-like domain / Transcription factor IIS, N-terminal / Spt4/RpoE2 zinc finger / Spt4/RpoE2 zinc finger / Spt4/RpoE2 zinc finger / : / Transcription elongation factor SPT5, KOWx domain / Transcription elongation factor SPT5, second KOW domain / Transcription elongation factor SPT5, fifth KOW domain / Transcription elongation factor SPT5, KOW1 domain / Transcription elongation factor SPT5, fourth KOW domain / Transcription elongation factor Spt5, eukaryote / Spt5 transcription elongation factor, N-terminal / Spt5, KOW domain repeat 2 / Spt5, KOW domain repeat 3 / Spt5, KOW domain repeat 5 / Spt5 transcription elongation factor, acidic N-terminal / NGN domain, eukaryotic / Spt5, KOW domain repeat 1 / Spt5, KOW domain repeat 4 / NGN domain / Transcription elongation factor SPT5 / Early transcription elongation factor of RNA pol II, NGN section / RuvA domain 2-like / TFIIS/LEDGF domain superfamily / Tetratricopeptide repeat / NusG, N-terminal domain superfamily / DNA-directed RNA polymerase II subunit Rpb4-like / RNA polymerase Rpb4/RPC9, core / DNA-directed RNA-polymerase II subunit / RNA polymerase Rpb1 C-terminal repeat / RNA polymerase II, heptapeptide repeat, eukaryotic / Eukaryotic RNA polymerase II heptapeptide repeat. / RNA polymerase Rpb1, domain 6 / RNA polymerase Rpb1, domain 6 / RNA polymerase Rpb1, domain 7 / RNA polymerase Rpb1, domain 7 superfamily / RNA polymerase Rpb1, domain 7 / S1 domain profile. / Rpb4/RPC9 superfamily / Pol II subunit B9, C-terminal zinc ribbon / RNA polymerase RBP11 / RNA polymerase subunit Rpb4/RPC9 / RNA polymerase Rpb4 / RNA polymerase Rpb7-like , N-terminal / RNA polymerase Rpb7-like, N-terminal domain superfamily / RNA polymerase subunit Rpb7-like / SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 / HRDC-like superfamily / RNA polymerase Rpb2, domain 5 / RNA polymerase Rpb2, domain 5 / RNA polymerase Rpb2, domain 4 / RNA polymerase Rpb2, domain 4 / DNA-directed RNA polymerase, M/15kDa subunit / RNA polymerases M/15 Kd subunit / RNA polymerase subunit 9 / DNA-directed RNA polymerase M, 15kDa subunit, conserved site
Similarity search - Domain/homology
Transcription elongation factor 1 homolog / DNA-directed RNA polymerase subunit beta / DNA-directed RNA polymerases I, II, and III subunit RPABC5 / Transcription elongation factor SPT4 / Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / RNA polymerase II subunit B32 / Transcription elongation factor SPT5 / RNA polymerase-associated protein LEO1 ...Transcription elongation factor 1 homolog / DNA-directed RNA polymerase subunit beta / DNA-directed RNA polymerases I, II, and III subunit RPABC5 / Transcription elongation factor SPT4 / Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / RNA polymerase II subunit B32 / Transcription elongation factor SPT5 / RNA polymerase-associated protein LEO1 / DNA-directed RNA polymerases I, II, and III subunit RPABC1 / RNA polymerase II subunit B12.5 / DNA-directed RNA polymerase subunit / Component of the Paf1p complex / Transcription elongation factor Spt6 / DNA-directed RNA polymerase II subunit RPB3 / Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II / RNAP II-associated protein / DNA-directed RNA polymerase subunit / RNA polymerase subunit ABC10-alpha / DNA-directed RNA polymerase subunit / RNAPII-associated chromatin remodeling Paf1 complex subunit / Histone H2A type 1-B/E / Histone H2B type 1-J / Histone H4 / Histone H3.3
Similarity search - Component
Biological speciesKomagataella phaffii (fungus) / Homo sapiens (human) / synthetic construct (others)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.6 Å
AuthorsEhara H / Kujirai T / Shirouzu M / Kurumizaka H / Sekine S
Funding support Japan, 7 items
OrganizationGrant numberCountry
Japan Society for the Promotion of Science (JSPS)JP20H03201 Japan
Japan Society for the Promotion of Science (JSPS)JP20H05690 Japan
Japan Society for the Promotion of Science (JSPS)JP20H00449 Japan
Japan Society for the Promotion of Science (JSPS)JP18H05534 Japan
Japan Agency for Medical Research and Development (AMED)JP20am0101082 Japan
Japan Agency for Medical Research and Development (AMED)JP21am0101076 Japan
Japan Science and TechnologyJPMJER1901 Japan
CitationJournal: Science / Year: 2022
Title: Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Authors: Haruhiko Ehara / Tomoya Kujirai / Mikako Shirouzu / Hitoshi Kurumizaka / Shun-Ichi Sekine /
Abstract: During gene transcription, RNA polymerase II (RNAPII) traverses nucleosomes in chromatin, but the mechanism has remained elusive. Using cryo-electron microscopy, we obtained structures of the RNAPII ...During gene transcription, RNA polymerase II (RNAPII) traverses nucleosomes in chromatin, but the mechanism has remained elusive. Using cryo-electron microscopy, we obtained structures of the RNAPII elongation complex (EC) passing through a nucleosome in the presence of the transcription elongation factors Spt6, Spn1, Elf1, Spt4/5, and Paf1C and the histone chaperone FACT (facilitates chromatin transcription). The structures show snapshots of EC progression on DNA mediating downstream nucleosome disassembly, followed by its reassembly upstream of the EC, which is facilitated by FACT. FACT dynamically adapts to successively occurring subnucleosome intermediates, forming an interface with the EC. Spt6, Spt4/5, and Paf1C form a "cradle" at the EC DNA-exit site and support the upstream nucleosome reassembly. These structures explain the mechanism by which the EC traverses nucleosomes while maintaining the chromatin structure and epigenetic information.
History
DepositionMay 13, 2022-
Header (metadata) releaseSep 7, 2022-
Map releaseSep 7, 2022-
UpdateJul 3, 2024-
Current statusJul 3, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_33424.png

Downloads & links

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Map

FileDownload / File: emd_33424.map.gz / Format: CCP4 / Size: 52.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
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AxesZ (Sec.)Y (Row.)X (Col.)
1.48 Å/pix.
x 240 pix.
= 356.16 Å		1.48 Å/pix.
x 240 pix.
= 356.16 Å		1.48 Å/pix.
x 240 pix.
= 356.16 Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.484 Å
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Histogram (log scale)
Contour LevelBy AUTHOR: 0.014
Minimum - Maximum-0.039566923 - 0.119742155
Average (Standard dev.)0.00054044183 (±0.004709873)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions240240240
Spacing240240240
CellA=B=C: 356.16 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: EC reconstruction

Fileemd_33424_additional_1.map
AnnotationEC reconstruction
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Additional map: nucleosome reconstruction

Fileemd_33424_additional_2.map
Annotationnucleosome reconstruction
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Half map: #2

Fileemd_33424_half_map_1.map
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Half map: #1

Fileemd_33424_half_map_2.map
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Sample components

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Entire : RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt...

EntireName: RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C
Components
  • Complex: RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C
    • Complex: RNA polymerase II
      • Protein or peptide: DNA-directed RNA polymerase subunit
      • Protein or peptide: DNA-directed RNA polymerase subunit beta
      • Protein or peptide: RNA polymerase II third largest subunit B44, part of central core
      • Protein or peptide: RNA polymerase II subunit B32
      • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC1
      • Protein or peptide: RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III
      • Protein or peptide: RNA polymerase II subunit
      • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC3
      • Protein or peptide: DNA-directed RNA polymerase subunit
      • Protein or peptide: RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III
      • Protein or peptide: RNA polymerase II subunit B12.5
      • Protein or peptide: RNA polymerase subunit ABC10-alpha
    • Complex: Elf1,Spt4/5,Spn1 and Paf1C
      • Protein or peptide: Transcription elongation factor 1 homolog
      • Protein or peptide: Transcription elongation factor SPT4
      • Protein or peptide: Transcription elongation factor SPT5
      • Protein or peptide: Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II
      • Protein or peptide: Component of the Paf1p complex
      • Protein or peptide: RNAPII-associated chromatin remodeling Paf1 complex subunit
      • Protein or peptide: Leo1
      • Protein or peptide: RNAP II-associated protein
      • Protein or peptide: Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p
    • Complex: DNA,RNA
      • DNA: DNA (198-MER)
      • RNA: RNA (5'-R(P*UP*GP*CP*CP*UP*GP*GP*UP*GP*UP*CP*UP*UP*GP*GP*GP*UP*GP*U)-3')
      • DNA: DNA (198-MER)
    • Complex: histone
      • Protein or peptide: Histone H3.3
      • Protein or peptide: Histone H4
      • Protein or peptide: Histone H2A type 1-B/E
      • Protein or peptide: Histone H2B type 1-J
    • Complex: Spt6
      • Protein or peptide: Transcription elongation factor Spt6
  • Ligand: ZINC ION
  • Ligand: MAGNESIUM ION

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Supramolecule #1: RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt...

SupramoleculeName: RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#29
Source (natural)Organism: Komagataella phaffii (fungus)

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Supramolecule #2: RNA polymerase II

SupramoleculeName: RNA polymerase II / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #1-#12
Source (natural)Organism: Komagataella phaffii (fungus)

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Supramolecule #3: Elf1,Spt4/5,Spn1 and Paf1C

SupramoleculeName: Elf1,Spt4/5,Spn1 and Paf1C / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #13, #17-#18, #24-#29
Source (natural)Organism: Homo sapiens (human)

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Supramolecule #4: DNA,RNA

SupramoleculeName: DNA,RNA / type: complex / ID: 4 / Parent: 1 / Macromolecule list: #14-#16
Source (natural)Organism: Komagataella phaffii (fungus) / Synthetically produced: Yes

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Supramolecule #5: histone

SupramoleculeName: histone / type: complex / ID: 5 / Parent: 1 / Macromolecule list: #19-#22

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Supramolecule #6: Spt6

SupramoleculeName: Spt6 / type: complex / ID: 6 / Parent: 1 / Macromolecule list: #23

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Macromolecule #1: DNA-directed RNA polymerase subunit

MacromoleculeName: DNA-directed RNA polymerase subunit / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: DNA-directed RNA polymerase
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 194.107422 KDa
SequenceString: MSQFPYSSAP LRSVKEVQFG LLSPEEIRAI SVVKIEYPEI MDESRQRPRE GGLNDPKLGS IDRNFKCQTC GEGMAECPGH FGHMELAKP VFHIGFIPKI KKVCECICMN CGKLLLDETN PTMAQAIRIR DPKKRFNAVW QLCKTKMVCE ADAPVDEYSE Q KVVSRGGC ...String:
MSQFPYSSAP LRSVKEVQFG LLSPEEIRAI SVVKIEYPEI MDESRQRPRE GGLNDPKLGS IDRNFKCQTC GEGMAECPGH FGHMELAKP VFHIGFIPKI KKVCECICMN CGKLLLDETN PTMAQAIRIR DPKKRFNAVW QLCKTKMVCE ADAPVDEYSE Q KVVSRGGC GNTQPVVRKD GMKLWGTWKK SGFSDRDAQP ERKLLTPGEI LNVFKHISPE DCFRLGFNED YARPEWMIIT VL PVPPPQV RPSIAMDETT QGQDDLTHKL SDILKANINV QKLEMDGSPQ HIINEVEQLL QFHVATYMDN DIAGQPQALQ KSG RPVKAI RARLKGKEGR LRGNLMGKRV DFSARTVISG DPNLELDQVG VPISIAKTLS YPETVTQYNI HRLTEYVRNG PNEH PGAKY VIRDNGDRID LRYHKRAGDI VLQYGWKVER HLMDDDPVLF NRQPSLHKMS MMAHRVKVMP YSTFRLNLSV TSPYN ADFD GDEMNLHVPQ SEETRAELSQ LCAVPLQIVS PQSNKPVMGI VQDTLCGVRK MTLRDTFIEY EQVMNMLFWV PSWDGV VPQ PAILKPKPLW TGKQLLSIAI PSGIHLQRTD GGNSLLSPKD NGMLIVDGKV MFGVVDKKTV GSGGGGLIHT VMREKGP KI CAELFGNIQK VVNYWLLHNG FSIGIGDAIA DASTMKEITH AISSAKEQVQ EIIYKAQHNE LELKPGMTLR ESFEGEVS R TLNDARDSAG RSAEMNLKDL NNVKQMVSAG SKGSFINIAQ MSACVGQQMV EGKRIAFGFA DRSLPHFTKD DFSPESKGF VENSYLRGLT PQEFFFHAMA GREGLIDTAV KTAETGYIQR RLVKALEDIM VHYDGTTRNS LGDIIQFLYG EDGLDGTQVE RQTIDTIPG SDKAFHKRYY VDLMDEKNSI KPDVIEYAAD ILGDVELQKE LNSEYEQLVS DRKFLREIVF VNGDHNWPLP V NLRRIIQN AQQIFHLDRA KASDLTIPEI IHGVRDLCKK LFVLRGENEL IKEAQQNATS LFQCLVRARL ATRRILEEFR LN RDAFEWV LGTIEAQFQR SLVHPGEMVG VIAAQSIGEP ATQMTLNTFH YAGVSSKNVT LGVPRLKEIL NVAKNIKTPA LTV YLDREI ALDIEKAKVI QSSIEYTTLK NVTSATEIYY DPDPTSTVIE EDFDTVEAYF SIPDEKVEET IDKQSPWLLR LELD RARML DKQLTMNQVA DKISEVFSDD LFVMWSEDNA DKLIIRCRVI RDPKAMDEEL EAEEDQMLKR IEAHMLDLIA LRGIP GISK VYMVKHKVSV PDESGEYKNE ELWALETDGI NLAEVMAVPG VDSSRTYSNS FVEILSVLGI EATRSSLYKE ILNVIA FDG SYVNYRHMAL LVDVMTSRGY LMAITRHGIN RADTGALMRC SFEETVEILF EAGAAAELDD CRGVSENVML GQLAPMG TG AFDVMIDEKL LTSLPADYAP TMPLFKGKAT QGSATPYDNN AQYDDEFNHD DVADVMFSPM AETGSGDDRS GGLTEYAG I QSPYQPTSPG LSATSPGFAP TSPGFAPTSP RYSPTSPGYS PTSPSYSPTS PSYSPTSPSY SPTSPSYSPT SPSYSPTSP SYSPTSPSYS PTSPSYSPTS PSYSPTSPQY SPTSPQYSPT SPQYSPTSPQ YSPTSPQYSP TSPQYSPTSP QYSPTSPQYS PTSPQYSPT SPQYSPTSPQ YSPTSPQYSP TSPQYSPTSP QYSPASPQYS PSRHSPNGES KEGE

UniProtKB: DNA-directed RNA polymerase subunit

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Macromolecule #2: DNA-directed RNA polymerase subunit beta

MacromoleculeName: DNA-directed RNA polymerase subunit beta / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO / EC number: DNA-directed RNA polymerase
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 139.746094 KDa
SequenceString: MSYDPYSIDD TITTEDCWTV ISAFFEEKGL VSQQLDSFDE FMETSIQDLV WEEPRLILDQ PAQHTNEKDN INKRYEIRFG KIYLSRPTM TEADGTTHAM FPQEARLRNL TYSSPVYLDM EKSMFTSIDD EGNPNATLDW QQVHEPIKDG VEEGNKVHIG K VPIMLRSK ...String:
MSYDPYSIDD TITTEDCWTV ISAFFEEKGL VSQQLDSFDE FMETSIQDLV WEEPRLILDQ PAQHTNEKDN INKRYEIRFG KIYLSRPTM TEADGTTHAM FPQEARLRNL TYSSPVYLDM EKSMFTSIDD EGNPNATLDW QQVHEPIKDG VEEGNKVHIG K VPIMLRSK FCSLRTLDEV DLYKMKECPY DMGGYFVING SEKVLIAQER SAANIVQVFK KAAPSPISHV AEIRSALEKG SR LISTMQI KLYGREDKGT GRTIKATLPY VKQDIPIVIV FRALGVVPDG EILQHICYDE NDWQMLEMLK PCIEEGFVIQ DKE VALDFI GRRGSAALGI RREKRIQYAK DILQKELLPH ITQEEGFETR KTFFLGYMVN RLLLCALERK DQDDRDHFGK KRLD LAGPL LANLFRILFR KLTREIYRYM QRCIETDRDF NLNLAVKSTT ITSGLKYSLA TGNWGEQKKA MSSRAGVSQV LNRYT YSST LSHLRRTNTP IGRDGKLAKP RQLHNTHWGL VCPAETPEGQ ACGLVKNLSL LSGISIGSPS EPIINFLEEW GMEPLE DYD PAQHTKSTRI FVNGVWTGIH RDPSMLVSTM RDLRRSGAIS PEVSIIRDIR EREFKIFTDV GRVYRPLFIV EDDESKD NK GELRITKEHI RKIQQGYDDD AMNDDSEEQE QDVYGWSSLV TSGVIEYVDG EEEETIMIAM TPEDLQTRSL EQKEIDLN D TAKRIKPEMS TSSHHTFTHC EIHPSMILGV AASIIPFPDH NQSPRNTYQS AMGKQAMGVF LTNYNVRMDT MANILYYPQ KPLAKTQAME YLKFRELPAG QNAIVAIACY SGYNQEDSMI MNQSSIDRGL FRSLFFRSYM DQEKRFGISI VEEFEKPTRA TTLRLKHGT YEKLDEDGLI APGVRVSGDD IIIGKTTPIP PDTEELGQRT KYHTKRDAST PLRSTENGIV DQVLLTTNQE G LKFVKVRM RTTKVPQIGD KFASRHGQKG TIGVTYRHED MPFSAEGIVP DLIINPHAIP SRMTVAHLIE CLLSKVGSIR GY EGDATPF TDLTVDAVSN LLRDNGYQSR GFEVMYNGHT GKKLMAQVFF GPTYYQRLRH MVDDKIHARA RGPVQVLTRQ PVE GRSRDG GLRFGEMERD CMIAHGAAGF LKERLMEASD AFRVHVCGIC GLMSVIANLK KNQFECRSCK NKTNIYQLHI PYAA KLLFQ ELMAMNIAPR LYTERSGVSM RS

UniProtKB: DNA-directed RNA polymerase subunit beta

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Macromolecule #3: RNA polymerase II third largest subunit B44, part of central core

MacromoleculeName: RNA polymerase II third largest subunit B44, part of central core
type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 34.216293 KDa
SequenceString: MSKEPKVNII NAQDDEVELM LSDVNLSLAN SLRRTMLAEV PTLAIDLVEI KMNTSVLADE FISHRLGLIP LVSEDVEEMK YSRDCTCED YCDECSVVLE LSARHEGEEG TTDVYSSSLI KVSGPGNLNV GEPVRRDDYD QGILLCKLRN HQELNIRCIA K KGIAKEHA ...String:
MSKEPKVNII NAQDDEVELM LSDVNLSLAN SLRRTMLAEV PTLAIDLVEI KMNTSVLADE FISHRLGLIP LVSEDVEEMK YSRDCTCED YCDECSVVLE LSARHEGEEG TTDVYSSSLI KVSGPGNLNV GEPVRRDDYD QGILLCKLRN HQELNIRCIA K KGIAKEHA KWSPCSAIAF EYDPHNKLKH TDFWFEVDAK KEWPDSKYAT WEEPPKPGEV FDYKAKPNRF YMTVETTGSL KA NQVFSRG IKTLQEKLAN VLFELENSRP ANTTAYGGAT AYGGQTVYGR ETSYGGNTNY GDYNAPY

UniProtKB: DNA-directed RNA polymerase II subunit RPB3

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Macromolecule #4: RNA polymerase II subunit B32

MacromoleculeName: RNA polymerase II subunit B32 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 20.62298 KDa
SequenceString:
MNVSTSTVGA RRRRAKQQVD DEENATLLRL GPEFALKQYD HDGNEHDLIA LSLSESRLLI REALKARSRA RNGGVDIESS NGEIDDDEL AKVTSGAVAN GVVKKTLDYL NTFARFKDEE TCTAVDQLLH NSSDCSVLHP FEIAQLSSLG CEDVDEAITL I PSLAAKKE VNLQRILDEL NRLEDPYK

UniProtKB: RNA polymerase II subunit B32

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Macromolecule #5: DNA-directed RNA polymerases I, II, and III subunit RPABC1

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC1
type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 24.96268 KDa
SequenceString: MEDNNRIISR LWRSFRTVKE MAADRGYFIS QEEMDQSLEE FRSKICDSMG NPQRKLMSFL ANPTPEALEK YSDLGTLWVE FCDEPSVGI KTMRNFCLRI QEKNFSTGIF IYQNNITPSA NKMIPTVSPA IIETFQESDL VVNITHHELV PKHIRLSDGE K SQLLQRYK ...String:
MEDNNRIISR LWRSFRTVKE MAADRGYFIS QEEMDQSLEE FRSKICDSMG NPQRKLMSFL ANPTPEALEK YSDLGTLWVE FCDEPSVGI KTMRNFCLRI QEKNFSTGIF IYQNNITPSA NKMIPTVSPA IIETFQESDL VVNITHHELV PKHIRLSDGE K SQLLQRYK LKESQLPRIQ REDPVARYLG LKRGQVVKII RRSETSGRYA SYRICL

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC1

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Macromolecule #6: RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III

MacromoleculeName: RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III
type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 17.803588 KDa
SequenceString:
MSEDEAFNEQ TENFENFEDE HFSDDNFEDR STQPEDYAVG VTADGRQIIN GDGIQEVNGT IKAHRKRSNK ELAILKEERT TTPYLTKYE RARILGTRAL QISMNAPVLV DIEGETDPLQ IAMKELSQRK IPLVIRRYLP DGSYEDWGCD ELIVDN

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC2

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Macromolecule #7: RNA polymerase II subunit

MacromoleculeName: RNA polymerase II subunit / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 18.802625 KDa
SequenceString:
MFFLKDLSLI LTLHPSYFGP QMNQYLREKL LTDVEGTCTG QFGYIVTVLD GMNIDVGKGR IIPGSGSAEF EVKYRAVVWK PFKGEVVDA IVSNVSPIGF FADVGPLNVF VSTRLIPDNL VYNPSNSPPA YMSNDELITK GSKVRLKVVG TRTDVNEIYA I GSIKEDFL GAI

UniProtKB: DNA-directed RNA polymerase subunit

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Macromolecule #8: DNA-directed RNA polymerases I, II, and III subunit RPABC3

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC3
type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 16.24922 KDa
SequenceString:
MSSALFDDIF TVQTVDNGRY NKVSRIIGIS TTNSAIKLTL DINNEMFPVS QDDSLTVTLA NSLSLDGEDE SANFSKSWRP PKPTDKSLA DDYDYVMFGT VYKFEEGDED KIKVYVSFGG LLMCLEGGYK SLASLKQDNL YILIRR

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC3

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Macromolecule #9: DNA-directed RNA polymerase subunit

MacromoleculeName: DNA-directed RNA polymerase subunit / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 13.61232 KDa
SequenceString:
MASFRFCLEC NNMLYPKEDK ENQRLLYSCR NCDYTELAED PKVYRHELIT NIGETAGIVD DIGQDPTLPR SDKECPECHS RDCVFFQSQ QRRKDTNMTL FYVCLNCKKT FRDESE

UniProtKB: DNA-directed RNA polymerase subunit

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Macromolecule #10: RNA polymerase subunit ABC10-beta, common to RNA polymerases I, I...

MacromoleculeName: RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III
type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 8.554064 KDa
SequenceString:
MIIPVRCFSC GKVVGDKWDA YLRLLEEGKQ EGDALDELKL KRYCCRRMVL THVDLIEKFL RYNPLEKKDF DS

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC5

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Macromolecule #11: RNA polymerase II subunit B12.5

MacromoleculeName: RNA polymerase II subunit B12.5 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 13.832896 KDa
SequenceString:
MNAPDRFELF ILPDDVPKLK ITPDSRVPNC IIIKFEREDH TLANLLREEL ALYPDVTFVA YKVEHPLFAN FVMRLQTEEG TRPKQALER ACASIINKLK TLDHKFNEEW NIKNFSLND

UniProtKB: RNA polymerase II subunit B12.5

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Macromolecule #12: RNA polymerase subunit ABC10-alpha

MacromoleculeName: RNA polymerase subunit ABC10-alpha / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 7.862048 KDa
SequenceString:
MSREGFVAPS GTDLAAAASG VAPNKHYGVK YTCGACAHNF SLNKSDPVRC KECGHRVIYK ARTKRMIQFD AR

UniProtKB: RNA polymerase subunit ABC10-alpha

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Macromolecule #13: Transcription elongation factor 1 homolog

MacromoleculeName: Transcription elongation factor 1 homolog / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 12.606896 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
GPGMGKRKSS ARKPAPKIKQ KLETQFTCLF CNHDNSVVCT LDKKNSIGLL ECKKCNLSFQ APINSLSQPI DIYSDWIDAC EAVAEENAD VNGDNFIEND GADREQDDDY DDEF

UniProtKB: Transcription elongation factor 1 homolog

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Macromolecule #17: Transcription elongation factor SPT4

MacromoleculeName: Transcription elongation factor SPT4 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 12.039614 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
MRERACMLCG IVLPGRVFMQ NGCPNCDSVL NLRDSDQATV NECTSSSFEG LVAVGDNEHS WVAKWLRVDR FQPGLYAVRV DGRLPSDIV AALEQYGVYY RPRDGSVID

UniProtKB: Transcription elongation factor SPT4

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Macromolecule #18: Transcription elongation factor SPT5

MacromoleculeName: Transcription elongation factor SPT5 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 101.459422 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: GPGMSETHKN QLDKVSTVSP DGPSEAVKEH SLQSKDLSKN DGQFIVPLDR NVIEQEEHKQ VKSSAQAHNT TGDAADNEIE DGVPSEDVE FDKFKEDDYD EDDEVEEEGD IRSRKRRRHN QFLDVEAEVD DEEDDDDDDD DVELKHDFIQ DDHIQHETQN E GFIAGHVD ...String:
GPGMSETHKN QLDKVSTVSP DGPSEAVKEH SLQSKDLSKN DGQFIVPLDR NVIEQEEHKQ VKSSAQAHNT TGDAADNEIE DGVPSEDVE FDKFKEDDYD EDDEVEEEGD IRSRKRRRHN QFLDVEAEVD DEEDDDDDDD DVELKHDFIQ DDHIQHETQN E GFIAGHVD DDRLHRKLDQ SREKIADQDA QELADEFKQR YGRSASSKYM GSASTTAPQR LLIPTVDDPG IWGVKVRLGK EK DVVRQIL KKKLAREGTK NPLEIYSAFQ RDSFKGHVYI EARKAEAIND ALKGNVNVFS NNSKFLVGIV EYKDLLRPVK SSD VKLTRG SYVRVKNGKF KGDLAQVDEV LENGLEARLK LVPRLDYGKD LSHLSTSSSV DSTKNRRKFY TSKFRPAQRL FSEA EARVH EPTIRRDRDG FVTYGGEEYY EGFLYKTFRL QNLIVNSINP TLNELSLFQS NEESTTIDLS TIADSLKETA KNLVS FQPG DNVEIINGEL NHLTGTVSSV NQSTIVSVRL HSDDDTINSE TVEIPTSDLR KIFNVGDHVR VIHGKHTDDT GLIVEV NGD KVEFISNQTK RTVIVFSNYL IKSTDSTVSI NESGRFELHD LVQVNSDLVG IVIRAQKDSF DVLCSDGKLL SLPPVSI YS KLNLNPNQQI AIDSNGVEVK VGDTVREFTG ERRQGTILHV YRNFLFLRSR EIVENQGVFV TSSNRVKTIT SKSNGTGG Q ISGPDLSRMN PSRVIPPPSI PVANQRMTGR DPTLNKTVKI RQGGYKGKIG IVKEANGDRF RVELHNPNKT IPIPCSFLL IESTHGWVPY EDFVASDRRG GNIPRHEISG HVQQPQHGRA PAWGSGGKTP AWGSGGKTPA WGSGGSGGKT PAWGSGGKTP TWGSGAKTP AWGSGSKTPA WSGLDEEDRR DF

UniProtKB: Transcription elongation factor SPT5

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Macromolecule #19: Histone H3.3

MacromoleculeName: Histone H3.3 / type: protein_or_peptide / ID: 19 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 15.643262 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
GSHMARTKQT ARKSTGGKAP RKQLATKAAR KSAPSTGGVK KPHRYRPGTV ALREIRRYQK STELLIRKLP FQRLVREIAQ DFKTDLRFQ SAAIGALQEA SEAYLVGLFE DTNLCAIHAK RVTIMPKDIQ LARRIRGERA

UniProtKB: Histone H3.3

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Macromolecule #20: Histone H4

MacromoleculeName: Histone H4 / type: protein_or_peptide / ID: 20 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 11.676703 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
GSHMSGRGKG GKGLGKGGAK RHRKVLRDNI QGITKPAIRR LARRGGVKRI SGLIYEETRG VLKVFLENVI RDAVTYTEHA KRKTVTAMD VVYALKRQGR TLYGFGG

UniProtKB: Histone H4

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Macromolecule #21: Histone H2A type 1-B/E

MacromoleculeName: Histone H2A type 1-B/E / type: protein_or_peptide / ID: 21 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 14.447825 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
GSHMSGRGKQ GGKARAKAKT RSSRAGLQFP VGRVHRLLRK GNYSERVGAG APVYLAAVLE YLTAEILELA GNAARDNKKT RIIPRHLQL AIRNDEELNK LLGRVTIAQG GVLPNIQAVL LPKKTESHHK AKGK

UniProtKB: Histone H2A type 1-B/E

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Macromolecule #22: Histone H2B type 1-J

MacromoleculeName: Histone H2B type 1-J / type: protein_or_peptide / ID: 22 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 14.217516 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
GSHMPEPAKS APAPKKGSKK AVTKAQKKDG KKRKRSRKES YSIYVYKVLK QVHPDTGISS KAMGIMNSFV NDIFERIAGE ASRLAHYNK RSTITSREIQ TAVRLLLPGE LAKHAVSEGT KAVTKYTSAK

UniProtKB: Histone H2B type 1-J

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Macromolecule #23: Transcription elongation factor Spt6

MacromoleculeName: Transcription elongation factor Spt6 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 173.241625 KDa
Recombinant expressionOrganism: Spodoptera frugiperda (fall armyworm)
SequenceString: GPGMSAPSPS VSEEDINETR NSIDADASTV QDLLDQDAQE GSGSDNEGSN IVDSSEEDDD EDDEEEMQKV REGFIVDDDD ENDEDGIPS STKRKHRKKH KKRSAEVVEE VDEDDLQLLM ENSGAVPGQQ QNVKFKRLKR AEQDEKAQDS DSRGLNDMFS D EEGPGGVV ...String:
GPGMSAPSPS VSEEDINETR NSIDADASTV QDLLDQDAQE GSGSDNEGSN IVDSSEEDDD EDDEEEMQKV REGFIVDDDD ENDEDGIPS STKRKHRKKH KKRSAEVVEE VDEDDLQLLM ENSGAVPGQQ QNVKFKRLKR AEQDEKAQDS DSRGLNDMFS D EEGPGGVV EEGSEEEGLE DNLTTKTQRS GNLPHDEFDD FIEEDEFSDE DDEARDERLA RMRSAKAAPQ LAGLQGEQYQ EI IEIFGDG TDYQWTLDAE EEMEQPQQDQ EYDEAGEEIK GTTTSLADVF EPSELKEKML TDEDNVIRVT DLPERFQAYR KSI KNYKLS DVDYSNERDW IVEQLKLEKR DFLQHLTQAH SSVAHLEEKF EASVKKIVDF IAIESFEVPF IWNHRRDYAL HTYN DDSNN TIIVKLLNED DLWRIVQLDL DYHSIHDKKA ALSSIYKQLD LDVVDPTYEE FFGSARTLSE LQDIDDYLTF NYSSQ VKNL TAVAELSIEG NGSGEDEEQT TKSSFAEVKM KRKYSKYAIY DRIRQDAIYP VVQSIANISQ MRENLAQSKR LHQVED PIE SPMDMIADIM STEKDKTTFI SSEKAYQAVK QFFSEQLSYE PFIRKTIRTA FQSFGVINIE LTERGKLQIE PESPYFD FK YAKNRPISAL TATPDLYLRM IQAENDGLVN IKVELPMLST VVDHFYNILK SDGTSEISEK WNALRNDAWK QSLDKLIP L VQLNVKESIR RDCERVLYFQ VKNSFTKKID QAPYQPPTYA KGTIPRVLTL SFGEGNRGDA VLGVFMDDSG DVKSQIKFD EDFQSRDFSD SLTRYIKSNN INPDIIGISG FNIHTKKLFD KVNELVNEER LTIEYDNEYG YDREEDGRSD KHLIRVIYVN DETARLYQH SSKSSAEYPN RPQLAKYCIG LAKYIQSPLL EYLALDESMY SLHIHKHQNL LPREKLIDAV QTSIVDIVNL V GVDINEAV RAPYHALALP YVCGLGPRKA AGLIQSIQRI GSNLVNRAHL ITEQLTSKTV FLNMASFVYI VFDPDVERNP QG EMDLLDS TRIHPEDYSL ARKMAADALD IEDIDDDDES AMRNAIYEMV FPRSPPKDED DLTFKLDELI LDDYATELER KHQ LKKRST LQIIKEELQS RYREIRRDFH ILNEAEIFQL LTRETVDSFR KGMVIPVYVR KVESSYMSVS TQSLIAGNIQ RQDI LEPND RRDPREVYSV GQTVRACILD VDYYNFKCQL SLLRQFTENQ VAGLNVNRNP KFWDIESENR DRQEEIDKQR EESRE SRVI KHPFFHNMKS KEAEDYLAAR PVGDVVIRPS SKGSNHITIS WKVAPQLYQH IDVLEENKDD ANAIGRVLLV GKYRYH DLD ELLVEYVNNV ANKVELMVSH DKFMSDSLDY VKEWLERYSK ANGNRSHYIF TFNRKAPGWF FLLFKLNPTS EIKIWNV KA LPDGYLLANN VYPDTNSLCN GFKTLMSSRR QIKQRSNRAG GEYNNSHAGA YDNGYSNAPR Y

UniProtKB: Transcription elongation factor Spt6

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Macromolecule #24: Protein that interacts with Spt6p and copurifies with Spt5p and R...

MacromoleculeName: Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II
type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 46.907785 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: GPGMSDEESE NKKLLDQVLP EKTDQETQPE ADAALAEQEA PENEPNEPAS DDDSDSDLSD ISDVDEEKVA EGLRYLDEQT AASLSKHKA AQPSSTHKKK EPTRRRPKQQ TARETQYEPD VVEDEAARRT RLFEEKLDAA IKRKPNKRKK NDDVDLEQMQ D ELIQQLKL ...String:
GPGMSDEESE NKKLLDQVLP EKTDQETQPE ADAALAEQEA PENEPNEPAS DDDSDSDLSD ISDVDEEKVA EGLRYLDEQT AASLSKHKA AQPSSTHKKK EPTRRRPKQQ TARETQYEPD VVEDEAARRT RLFEEKLDAA IKRKPNKRKK NDDVDLEQMQ D ELIQQLKL QMEESAIRDA NNIEQGKPAI FKLKLLPKVK DILLRANLAD SILDNNLLAS VRLWLEPLPD ASLPAYQIQK VL FDAIKSL PIKTSHLRES GLGKVMVFYQ KSKRVEPNLK RTAEKLISDW TRPIMGASDN YKDMRVRTQQ FDPAQFAESL PGR VSVRPQ EAKTLYEEAA ERRKRAAIPQ ARTAAYTIAP QVNTELLMSS ARRTLPSGVG SSLSGEDQYK RLNSRLNTMG TKRK SSAKK GGISIEGRGL PQ

UniProtKB: Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II

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Macromolecule #25: Component of the Paf1p complex

MacromoleculeName: Component of the Paf1p complex / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 124.979008 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MKDHLIHNHH KHEHAHAEHD YKDDDDKEHL YFQGSSGSSG MSLLDQDYYL SALPEDKRAE LVTLQLTIPL KSGDEVVTID FNEDVDVSQ LCVLLESENA RPDLWLSAAK VFVSKGNIAG SQEIIRKALQ SNVILDSSAS VTSLFHNFSF WLSLMEYVST N SREDQFLE ...String:
MKDHLIHNHH KHEHAHAEHD YKDDDDKEHL YFQGSSGSSG MSLLDQDYYL SALPEDKRAE LVTLQLTIPL KSGDEVVTID FNEDVDVSQ LCVLLESENA RPDLWLSAAK VFVSKGNIAG SQEIIRKALQ SNVILDSSAS VTSLFHNFSF WLSLMEYVST N SREDQFLE YASNSLQASN SLDSGLILNG IGNGVLYAKS RRYDEALKEF DNLLKKKSTN ILAILGKAQI LYKRQKYSQA LE LYQKALT INPLIVPDPR LGIGLCFWHL NNKQLAEQAW HNSLKVHPQN NLNTKILICL AKFDYCFNES KDDDEFTALY RES LEFLHS CLKEDAKHPL LLMVLASYYF SKEDYEKVEK LCNLVLKENS RNAAFVSASH FWLARVAYHK EDYVQAQKQF KQAE DSQNS NTLAKLGYAQ CLIARNEVGD ATIYLEKFFK ENQDSKSSEM MLLLGIIYSQ SGKSYYKAII FLEKYVAVCQ EENYP ILPE AYLVLSRVYE NKDLNVALDY LMKANDILGD KANVYVLNNL GIYHFFRNNV SQSSDFFAQS LEALNNVSPQ NKEALS ITL HYNKARVEEV SNQSEAEKLY SKLMEKCPGY TSNKIRYIYL LALKSNGNNY ADVQQLLDDF PSDLEVRSFY GWFLKRY GR KNGLKQDLES QHHKDTLINY DKHDCYALLS LGNIYATIAR EMKVTDQKQN EIKRQQYLRA AQFYHKVLSI DPKNIYAA Q GIAIIFSDKE RTGLALEIFK KVRDTVQDLG TFINLGHCFM EAKQFGKAIE SYTIALEKFS NGMDSKLLVL IGRAWYHRG FYEKSMDAYK KALEVSEQAY QLSKLPALRF NIVFIQFQIA DFVKSLPNTQ RDLTTLENAL SGLNDAIKSL LKLAELEQPP YPSEDLKAR ATMGSNTLRN QLERAIQDQQ DYEMSIQEKL RTARRKQQLD EEKRLEQEQR RLEEARKRQE AELIKRQELI K QAEEWNKM DIDAAKDNND VLSEDGGEGE KKTTKKRKRK QKVSEDIAPD LDRINEENGN TEDYDPILDN EEEENYDEKD SE NKENGQN GQNEEVYPES EGDDEDDVTN TKRQKRSKGI VDEEDSE

UniProtKB: Component of the Paf1p complex

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Macromolecule #26: RNAPII-associated chromatin remodeling Paf1 complex subunit

MacromoleculeName: RNAPII-associated chromatin remodeling Paf1 complex subunit
type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 62.301246 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSDKEQDLDE DLLALAGAGS DSESNSAYSP EQEVSRKSKK IVNDSEDENN DSDGEQLLN PYPLEDKFKD EADRARLLGL SEMEREAILY ERSQEVIKLK EKHLLSLRAK QSQLEKTARE GPKSSKTNKL S ELKKQREQ ...String:
MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSDKEQDLDE DLLALAGAGS DSESNSAYSP EQEVSRKSKK IVNDSEDENN DSDGEQLLN PYPLEDKFKD EADRARLLGL SEMEREAILY ERSQEVIKLK EKHLLSLRAK QSQLEKTARE GPKSSKTNKL S ELKKQREQ KSKRQRSDEY SDEEDDYRYE EVGDNDDVEM SDNYIDEDDA VFVEPKKSSR SQELSKPATL SDINKIIFGR TA MSKYWYY PEFDDVVKGM YLRLNTGSGG NGFSPYKVVE VLGSQRIKGS AYGLNSKENN CDMYLKVAFP NQKEMVRPLF VFS DSSITH PEFDLFLREL DAEGLSVMDL RDVDYKYHQL KEMSSRSLSN DEVNSIVKMK QSLSSNTGFN TVLKKAQLQE ELEE ARDAH DHERVARIEA ELKSIGAESV VASKASSSML KIDQRNKKLN NRFIRKAEMA AVEKRKLRGT SESDPFYRLA TTARM FYKS ANLGADDSNQ PKTKAELEEE AKQEKKLEMQ KLESMVKSNY RNGGLDRIIS KIDFDFDLEL

UniProtKB: RNAPII-associated chromatin remodeling Paf1 complex subunit

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Macromolecule #27: Leo1

MacromoleculeName: Leo1 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 52.387715 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSQELEQNRH SGEESPDPVL DANTSDVDDD GLDLFGDDDD EQPEAKPGQL DDSSNDAEE DEQEKAGKPE AKVTSHTKSV YDNGETLDIS LPIHPKSHIP QGKQDRWVVK LPDFLDINAE PFDPRPFEMN V KTHEDKNQ ...String:
MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSQELEQNRH SGEESPDPVL DANTSDVDDD GLDLFGDDDD EQPEAKPGQL DDSSNDAEE DEQEKAGKPE AKVTSHTKSV YDNGETLDIS LPIHPKSHIP QGKQDRWVVK LPDFLDINAE PFDPRPFEMN V KTHEDKNQ ELLDKLIAVN TVRWRYAKSE TGGIFKETNS QIIQWEDGTY SLRVGSEIFD MFTTNTDDNY LVSEHNEEGI LM TESTLSK SVKLVPASFQ STTHQKLAKA LSAKQKKESY ARSVVTKEDP EERQRRLESQ ENERYRLERR RKQAEEEEDY DSY AVSTSR SRPSRASQMY NAADEDDDDD DVAIGRTLAS RRNNGYEDDG FIIDDEEEEE AVENDSADEE SENEGDDDEE DDEE AAERL NRLKRAGASK YTNEGEQAQS EPVKSEEADN ASQRDDAPRK KRRVILDDDE EEEE

UniProtKB: RNA polymerase-associated protein LEO1

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Macromolecule #28: RNAP II-associated protein

MacromoleculeName: RNAP II-associated protein / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 46.04598 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: GSAMTSSKSR QDYIAKVRYQ NDLPAPPCPP KLLKYEIEKE APQKEFLKDS RLLSALFSKD NFRYLMNETS DGLDVNYLRI PGIIENEKS LGKLFSSYKN LAIENLHPDD RLLLVDPNKS ATLNEESPVF FLRRPQYVSD GEKINLQNFT NKRKHQDMED T NPRSQLHS ...String:
GSAMTSSKSR QDYIAKVRYQ NDLPAPPCPP KLLKYEIEKE APQKEFLKDS RLLSALFSKD NFRYLMNETS DGLDVNYLRI PGIIENEKS LGKLFSSYKN LAIENLHPDD RLLLVDPNKS ATLNEESPVF FLRRPQYVSD GEKINLQNFT NKRKHQDMED T NPRSQLHS VERTFDEVID PRNKNRLQSL IHPRKKIKAV KAWHFFPDTS TFDQVFHSLK FVGSASLSKD RPLNEQLGQV SE TDSTSVN ASILTSLFKP IEINPHNKWI SLYAVTDKLS AESFRKSFNS IKDDNIVNRH VIYDHIKDFD QMFRGHKKLF EDF AISFDD ISDRAFFVPI VGRLELKKKR IVPGLVDMVN RTNYAHIRMD LRNPSTQETA IRDSRREQYD PVNYSSIQEE

UniProtKB: RNAP II-associated protein

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Macromolecule #29: Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p,...

MacromoleculeName: Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p
type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Komagataella phaffii (fungus)
Molecular weightTheoretical: 44.760652 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSEPLIALRQ AIKDKKPVGV NEGETIGNAK VLNIGEKQYS LDAPTSFVIN GKEFNLKVI YQCWVFRDSS SADYITECEK ENIDGISFVE RSELISWLKG EITSSAFIKG EKVGITEENG KNEGETKSNN K RKLSDDPL ...String:
MKDHLIHNHH KHEHAHAEHL YFQGSSGSSG MSEPLIALRQ AIKDKKPVGV NEGETIGNAK VLNIGEKQYS LDAPTSFVIN GKEFNLKVI YQCWVFRDSS SADYITECEK ENIDGISFVE RSELISWLKG EITSSAFIKG EKVGITEENG KNEGETKSNN K RKLSDDPL LKEIASNERV LIDHNKVLRG LKPKDFSSVA KDCELRILKE KPANAKSSDS NGRSSTSVSS SSKDARNKEP II VLSPAAS SLVRMSNVKE FLQEGKFLDP SKEPASSSNL LAIQRKSSRF KTPIKLLVVD NVEKLFTKSE YWDRVVAIVT TGK DWQFKN YKYKDPQILF QKFNGFYFKY KGDAVPASVK SWNVKVLDID RVERFSDRQV VEQFWDTVEN TLVAKRYKS

UniProtKB: Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p

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Macromolecule #14: DNA (198-MER)

MacromoleculeName: DNA (198-MER) / type: dna / ID: 14 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 61.381906 KDa
SequenceString: (DG)(DC)(DT)(DT)(DA)(DC)(DG)(DT)(DC)(DA) (DG)(DT)(DC)(DT)(DG)(DG)(DC)(DC)(DA)(DT) (DC)(DT)(DT)(DT)(DG)(DT)(DG)(DT)(DT) (DT)(DG)(DG)(DT)(DG)(DT)(DG)(DT)(DT)(DT) (DG) (DG)(DG)(DT)(DG)(DG)(DT) ...String:
(DG)(DC)(DT)(DT)(DA)(DC)(DG)(DT)(DC)(DA) (DG)(DT)(DC)(DT)(DG)(DG)(DC)(DC)(DA)(DT) (DC)(DT)(DT)(DT)(DG)(DT)(DG)(DT)(DT) (DT)(DG)(DG)(DT)(DG)(DT)(DG)(DT)(DT)(DT) (DG) (DG)(DG)(DT)(DG)(DG)(DT)(DG)(DG) (DC)(DC)(DG)(DT)(DT)(DT)(DT)(DC)(DG)(DT) (DT)(DG) (DT)(DT)(DT)(DT)(DT)(DT)(DT) (DC)(DT)(DG)(DT)(DC)(DT)(DC)(DG)(DT)(DG) (DC)(DC)(DT) (DG)(DG)(DT)(DG)(DT)(DC) (DT)(DT)(DG)(DG)(DG)(DT)(DG)(DT)(DA)(DA) (DT)(DC)(DC)(DC) (DC)(DT)(DT)(DG)(DG) (DC)(DG)(DG)(DT)(DT)(DA)(DA)(DA)(DA)(DC) (DG)(DC)(DG)(DG)(DG) (DG)(DG)(DA)(DC) (DA)(DG)(DC)(DG)(DC)(DG)(DT)(DA)(DC)(DG) (DT)(DG)(DC)(DG)(DT)(DT) (DT)(DA)(DA) (DG)(DC)(DG)(DG)(DT)(DG)(DC)(DT)(DA)(DG) (DA)(DG)(DC)(DT)(DG)(DT)(DC) (DT)(DA) (DC)(DG)(DA)(DC)(DC)(DA)(DA)(DT)(DT)(DG) (DA)(DG)(DC)(DG)(DG)(DC)(DC)(DT) (DC) (DG)(DG)(DC)(DA)(DC)(DC)(DG)(DG)(DG)(DA) (DT)(DT)(DC)(DT)(DG)(DA)(DT)

+
Macromolecule #16: DNA (198-MER)

MacromoleculeName: DNA (198-MER) / type: dna / ID: 16 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 60.869977 KDa
SequenceString: (DA)(DT)(DC)(DA)(DG)(DA)(DA)(DT)(DC)(DC) (DC)(DG)(DG)(DT)(DG)(DC)(DC)(DG)(DA)(DG) (DG)(DC)(DC)(DG)(DC)(DT)(DC)(DA)(DA) (DT)(DT)(DG)(DG)(DT)(DC)(DG)(DT)(DA)(DG) (DA) (DC)(DA)(DG)(DC)(DT)(DC) ...String:
(DA)(DT)(DC)(DA)(DG)(DA)(DA)(DT)(DC)(DC) (DC)(DG)(DG)(DT)(DG)(DC)(DC)(DG)(DA)(DG) (DG)(DC)(DC)(DG)(DC)(DT)(DC)(DA)(DA) (DT)(DT)(DG)(DG)(DT)(DC)(DG)(DT)(DA)(DG) (DA) (DC)(DA)(DG)(DC)(DT)(DC)(DT)(DA) (DG)(DC)(DA)(DC)(DC)(DG)(DC)(DT)(DT)(DA) (DA)(DA) (DC)(DG)(DC)(DA)(DC)(DG)(DT) (DA)(DC)(DG)(DC)(DG)(DC)(DT)(DG)(DT)(DC) (DC)(DC)(DC) (DC)(DG)(DC)(DG)(DT)(DT) (DT)(DT)(DA)(DA)(DC)(DC)(DG)(DC)(DC)(DA) (DA)(DG)(DG)(DG) (DG)(DA)(DT)(DT)(DA) (DC)(DA)(DC)(DC)(DC)(DA)(DA)(DG)(DA)(DC) (DA)(DC)(DC)(DA)(DG) (DG)(DC)(DA)(DC) (DG)(DA)(DG)(DA)(DC)(DA)(DG)(DA)(DA)(DA) (DA)(DA)(DA)(DA)(DC)(DA) (DA)(DC)(DG) (DA)(DA)(DA)(DA)(DC)(DG)(DG)(DC)(DC)(DA) (DC)(DC)(DA)(DC)(DC)(DC)(DA) (DA)(DA) (DC)(DA)(DC)(DA)(DC)(DC)(DA)(DA)(DA)(DC) (DA)(DC)(DA)(DA)(DG)(DA)(DG)(DC) (DT) (DA)(DA)(DT)(DT)(DG)(DA)(DC)(DT)(DG)(DA) (DC)(DG)(DT)(DA)(DA)(DG)(DC)

+
Macromolecule #15: RNA (5'-R(P*UP*GP*CP*CP*UP*GP*GP*UP*GP*UP*CP*UP*UP*GP*GP*GP*UP*GP...

MacromoleculeName: RNA (5'-R(P*UP*GP*CP*CP*UP*GP*GP*UP*GP*UP*CP*UP*UP*GP*GP*GP*UP*GP*U)-3')
type: rna / ID: 15 / Number of copies: 1
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 6.081562 KDa
SequenceString:
UGCCUGGUGU CUUGGGUGU

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Macromolecule #30: ZINC ION

MacromoleculeName: ZINC ION / type: ligand / ID: 30 / Number of copies: 10 / Formula: ZN
Molecular weightTheoretical: 65.409 Da

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Macromolecule #31: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 31 / Number of copies: 1 / Formula: MG
Molecular weightTheoretical: 24.305 Da

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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

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 51.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 76913
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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