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- EMDB-68999: Cryo-EM structure of Chaetomium thermophilum SWI/SNF bound to a n... -

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Basic information

Entry
Database: EMDB / ID: EMD-68999
TitleCryo-EM structure of Chaetomium thermophilum SWI/SNF bound to a nucleosome
Map dataThe compsite map for the Chaetomium thermophilum SWI/SNF-NCP complex
Sample
  • Complex: SWI/SNF
    • Protein or peptide: x 14 types
    • DNA: x 2 types
  • Ligand: x 1 types
KeywordsDNA BINDING PROTEIN / Chromatin remodeling complex / SWI/SNF / nucleosome / NUCLEAR PROTEIN/DNA / NUCLEAR PROTEIN-DNA complex
Function / homology
Function and homology information


RSC-type complex / SWI/SNF complex / nuclear chromosome / helicase activity / chromatin DNA binding / transcription by RNA polymerase II / nucleosomal DNA binding / innate immune response in mucosa / structural constituent of chromatin / nucleosome ...RSC-type complex / SWI/SNF complex / nuclear chromosome / helicase activity / chromatin DNA binding / transcription by RNA polymerase II / nucleosomal DNA binding / innate immune response in mucosa / structural constituent of chromatin / nucleosome / nucleosome assembly / antimicrobial humoral immune response mediated by antimicrobial peptide / heterochromatin formation / histone binding / antibacterial humoral response / chromatin organization / transcription cis-regulatory region binding / chromatin remodeling / protein heterodimerization activity / hydrolase activity / DNA repair / regulation of transcription by RNA polymerase II / regulation of DNA-templated transcription / positive regulation of DNA-templated transcription / DNA binding / : / DNA-templated transcription / ATP binding / nucleus
Similarity search - Function
SWI/SNF and RSC complexes subunit Ssr4, N-terminal / SWI/SNF and RSC complexes subunit Ssr4, C-terminal / SWI/SNF and RSC complexes subunit Ssr4 N-terminal / SWI/SNF and RSC complexes subunit Ssr4 C-terminal / Rsc8/Ssr1/Ssr2, zinc finger, ZZ-type / : / Chromatin-remodelling complex, RSC SWI/SNF subunit Rsc7/Swp82 / Chromatin remodelling complex Rsc7/Swp82 subunit / SWIB domain / SWI complex, BAF60b domains ...SWI/SNF and RSC complexes subunit Ssr4, N-terminal / SWI/SNF and RSC complexes subunit Ssr4, C-terminal / SWI/SNF and RSC complexes subunit Ssr4 N-terminal / SWI/SNF and RSC complexes subunit Ssr4 C-terminal / Rsc8/Ssr1/Ssr2, zinc finger, ZZ-type / : / Chromatin-remodelling complex, RSC SWI/SNF subunit Rsc7/Swp82 / Chromatin remodelling complex Rsc7/Swp82 subunit / SWIB domain / SWI complex, BAF60b domains / SMARCC, C-terminal / SWIRM-associated region 1 / SNF5/SMARCB1/INI1 / SNF5 / SMARCB1 / INI1 / YjgF/YER057c/UK114 family / Endoribonuclease L-PSP / RutC-like superfamily / Glutamine-Leucine-Glutamine, QLQ / QLQ domain profile. / QLQ / Myb-like domain profile. / Snf2-ATP coupling, chromatin remodelling complex / Snf2, ATP coupling domain / Snf2-ATP coupling, chromatin remodelling complex / ARID DNA-binding domain / ARID DNA-binding domain superfamily / ARID/BRIGHT DNA binding domain / ARID domain profile. / BRIGHT, ARID (A/T-rich interaction domain) domain / ARID/BRIGHT DNA binding domain / SWIRM domain / SWIRM domain / SWIRM domain profile. / HSA domain / SWIB/MDM2 domain / SWIB/MDM2 domain / SWIB/MDM2 domain profile. / Helicase/SANT-associated domain / HSA domain profile. / SWIB/MDM2 domain superfamily / SANT domain profile. / SANT domain / Myb-like DNA-binding domain / : / SNF2-like, N-terminal domain superfamily / SNF2, N-terminal / SNF2-related domain / SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains / SANT/Myb domain / Actin, conserved site / Actins signature 2. / Actin / Actin family / Actin / : / Histone H2A conserved site / Histone H2A signature. / Histone H2B signature. / Histone H2B / Histone H2B / Histone H2A, C-terminal domain / C-terminus of histone H2A / Histone 2A / Histone H2A / TATA box binding protein associated factor / TATA box binding protein associated factor (TAF), histone-like fold domain / Homeobox-like domain superfamily / Histone H4, conserved site / Histone H4 signature. / Histone H4 / Histone H4 / CENP-T/Histone H4, histone fold / Centromere kinetochore component CENP-T histone fold / Helicase conserved C-terminal domain / Histone H3 signature 1. / ATPase, nucleotide binding domain / Histone H3 signature 2. / Histone H3 / Histone H3/CENP-A / Histone H2A/H2B/H3 / Core histone H2A/H2B/H3/H4 domain / Bromodomain / bromo domain / Bromodomain / Bromodomain (BrD) profile. / Bromodomain-like superfamily / Histone-fold / helicase superfamily c-terminal domain / WD domain, G-beta repeat / Superfamilies 1 and 2 helicase C-terminal domain profile. / Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. / DEAD-like helicases superfamily / Helicase, C-terminal / Helicase superfamily 1/2, ATP-binding domain / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD40 repeats / WD40 repeat
Similarity search - Domain/homology
Histone H3 / Histone H2B / DM2 domain-containing protein / LYR family protein / ARID domain-containing protein / Uncharacterized protein / Uncharacterized protein / Chromatin structure remodeling complex protein / Actin-related protein 4 / Nuclear localization protein ...Histone H3 / Histone H2B / DM2 domain-containing protein / LYR family protein / ARID domain-containing protein / Uncharacterized protein / Uncharacterized protein / Chromatin structure remodeling complex protein / Actin-related protein 4 / Nuclear localization protein / DUF1750-domain-containing protein / WD40 repeat-containing protein / Histone H4 / Histone H2A
Similarity search - Component
Biological speciesThermochaetoides thermophila (fungus) / Xenopus laevis (African clawed frog) / Thermochaetoides thermophila DSM 1495 (fungus) / synthetic construct (others)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.46 Å
AuthorsMa SS / Liu MD / Shen QT / Chen Y
Funding support China, 1 items
OrganizationGrant numberCountry
Ministry of Science and Technology (MoST, China)2023YFA1800403 China
CitationJournal: Sci Adv / Year: 2026
Title: Structural principles underlying the evolution of SWI/SNF chromatin remodelers
Authors: Ma SS / Liu MD / Xu WC / Wang QM / Wang XM / Huang YG / Li MC / Li CH / Shen QT / Chen Y
History
DepositionFeb 7, 2026-
Header (metadata) releaseAug 12, 2026-
Map releaseAug 12, 2026-
UpdateAug 12, 2026-
Current statusAug 12, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_68999.png

Downloads & links

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Map

FileDownload / File: emd_68999.map.gz / Format: CCP4 / Size: 282.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationThe compsite map for the Chaetomium thermophilum SWI/SNF-NCP complex
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.06 Å/pix.
x 420 pix.
= 445.2 Å		1.06 Å/pix.
x 420 pix.
= 445.2 Å		1.06 Å/pix.
x 420 pix.
= 445.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.06 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 1.4
Minimum - Maximum-1.3998678 - 115.603960000000001
Average (Standard dev.)0.040741384 (±1.4307495)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions420420420
Spacing420420420
CellA=B=C: 445.19998 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : SWI/SNF

EntireName: SWI/SNF
Components
  • Complex: SWI/SNF
    • Protein or peptide: Histone H3
    • Protein or peptide: Histone H4
    • Protein or peptide: Histone H2A
    • Protein or peptide: Histone H2B
    • Protein or peptide: WD40 repeat-containing protein
    • Protein or peptide: Putative chromatin structure remodeling complex protein
    • Protein or peptide: Actin-related protein 4
    • Protein or peptide: Ssr1
    • Protein or peptide: DM2 domain-containing protein
    • Protein or peptide: DUF1750-domain-containing protein
    • Protein or peptide: ARID domain-containing protein
    • Protein or peptide: Snf5
    • Protein or peptide: Nuclear localization protein
    • Protein or peptide: LYR family protein
    • DNA: DNA (167-MER)
    • DNA: DNA (167-MER)
  • Ligand: ADENOSINE-5'-DIPHOSPHATE

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Supramolecule #1: SWI/SNF

SupramoleculeName: SWI/SNF / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#16
Details: The SWI/SNF complex is overexpressed in 293F cells and purified by affinity chromatography, anion exchange chromatography, Grafix, etc.
Source (natural)Organism: Thermochaetoides thermophila (fungus)

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Macromolecule #1: Histone H3

MacromoleculeName: Histone H3 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
Molecular weightTheoretical: 15.30393 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
ARTKQTARKS TGGKAPRKQL ATKAARKSAP ATGGVKKPHR YRPGTVALRE IRRYQKSTEL LIRKLPFQRL VREIAQDFKT DLRFQSSAV MALQEASEAY LVALFEDTNL CAIHAKRVTI MPKDIQLARR IRGERA

UniProtKB: Histone H3

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Macromolecule #2: Histone H4

MacromoleculeName: Histone H4 / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
Molecular weightTheoretical: 11.263231 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
SGRGKGGKGL GKGGAKRHRK VLRDNIQGIT KPAIRRLARR GGVKRISGLI YEETRGVLKV FLENVIRDAV TYTEHAKRKT VTAMDVVYA LKRQGRTLYG FGG

UniProtKB: Histone H4

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Macromolecule #3: Histone H2A

MacromoleculeName: Histone H2A / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
Molecular weightTheoretical: 13.978241 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
SGRGKQGGKT RAKAKTRSSR AGLQFPVGRV HRLLRKGNYA ERVGAGAPVY LAAVLEYLTA EILELAGNAA RDNKKTRIIP RHLQLAVRN DEELNKLLGR VTIAQGGVLP NIQSVLLPKK TESSKSAKSK

UniProtKB: Histone H2A

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Macromolecule #4: Histone H2B

MacromoleculeName: Histone H2B / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
Molecular weightTheoretical: 13.848097 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
PEPAKSAPAP KKGSKKAVTK TQKKDGKKRR KTRKESYAIY VYKVLKQVHP DTGISSKAMS IMNSFVNDVF ERIAGEASRL AHYNKRSTI TSREIQTAVR LLLPGELAKH AVSEGTKAVT KYTSAK

UniProtKB: Histone H2B

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Macromolecule #5: WD40 repeat-containing protein

MacromoleculeName: WD40 repeat-containing protein / type: protein_or_peptide / ID: 5
Details: THE N-TERMINAL 62AA CONTAINS 3XFLAG TAG, 3C SITE, AND THE CLONING LINKER
Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 179.692891 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: GSPQQNKTAA LAQHDEADYK DHDGDYKDHD IDYKDDDDKG GSGGSLEVLF QGPGGSGGSG TMTSVQVPQV PPAVQLPGTA IPANMTQQQ AQEVYKRWRQ MKESGVPPTD PEFIKTQNIL SALQRQSDMR KQMQMQQQMQ LQQQQQQQQQ QQQQQQQQQQ Q QQQVMQNG ...String:
GSPQQNKTAA LAQHDEADYK DHDGDYKDHD IDYKDDDDKG GSGGSLEVLF QGPGGSGGSG TMTSVQVPQV PPAVQLPGTA IPANMTQQQ AQEVYKRWRQ MKESGVPPTD PEFIKTQNIL SALQRQSDMR KQMQMQQQMQ LQQQQQQQQQ QQQQQQQQQQ Q QQQVMQNG ANGVVNGTQF GRVAQPGAAP ASMPPATGAL GASALPAGSA APAQNAAGAS ALPPQLQGHP HFTQAQLNLL MN QIKAFRM LGKNAGVPIQ MQKAIFEHRA RRRQSLGKQE PQPAATSVTP TTSAETPAPD ASKPAVNGPE AIKAAAPATT TAS LSDPQS KTFKTVKSPF DAGFIRKTIS YIDHSRRKNR QLVPGLFPTG IDFEQLRADR EKIIFNRMSQ RYQELKSLPG NLAH WDASK DELVADDTAK RKAIIEMKKL ALYSKQRALR EKIGRQMMHY DNLAMTTNRA QYRRMKKHNV REARITEKLE KQQRD AREN RERKKHIDFL QAIQNHRNEV LNAGAAQRLK MSKLSRHMYN HHFNIEKEEQ KRIERTAKQR LQALKANDEE AYLKLL DQA KDTRITHLLK QTDGFLKQLA ASVREQQRQA AEKYGEPMDI PSSEDEDEDD ENGRSKIDYY AVAHRIKEEV TEQASIL VG GTLKEYQLKG LQWMLSLYNN NLNGILADEM GLGKTIQTIS LITYLIEKKK QNGPYLVIVP LSTLTNWNLE FEKWAPSV T KVVYKGPPNA RKMQQEKIRQ GKFQVLLTTY EYIIKDRPLL SKIKWFHMII DEGHRMKNTN SKLSATIQQY YTTRFRLIL TGTPLQNNLA ELWAMLNFVL PNIFKSAKTF DEWFNTPFAN TGGQDKMELT EEEQILVIRR LHKVLRPFLL RRLKKDVEKD LPDKTEKVI KCKFSALQAR LYKQMVTHQK IIVSDGKGGK TGARGLSNMI MQLRKLCNHP FVFDEVENQM NPQNISNDLL W RTAGKFEL LDRILPKYKA TGHRVLMFFQ MTAIMDIMED YLRYRGLHYL RLDGTTKSED RSELLKLFNA PDSPYFMFLL ST RAGGLGL NLQTADTVII YDSDWNPHQD LQAQDRAHRI GQKNEVRILR LITSNSVEEK ILERARFKLD MDGKVIQAGR FDN KSSETD RDAMLRTLLE TADLAESGEQ EEMDDEELNM VLARNEEELA IFQKIDEERN RDPIYGTAPG CKGVPRLMTE DELP EIYLH EGNPAEEENE VHLGRGARER KQIRYDDGLT EEQWLMAVDD DEDTPEAAAA RKQARREKRE QNKLKRLAML NASME NSPS ASRASTEDVE TPKKRGRKPG SKNQEKRKAE DGDDEPPAKK RRGPQGRPKA VGTSSGGSAL APELRDKLQK ACRRIF DGL MNLAVDDDEP PEKPEGENDD ESEDEGPPKR LIIGPFVKLP PKREWQDYYV IIQNPICMND IQKKIKREEY NSLGDMR KD LDLLVTNCRT FNEETSGICQ DANTIEAYFK EHFAKELAED PDLRALEDPN SPNLVGLNVD GVNSSASSSS AEASGPAT T GESSAAQSSQ PASSTTSTTP APAPAPAAPT GPPRIKLVSS ANKENKGDTN TSANGSAAQT NGGVNGVANG NSEA

UniProtKB: WD40 repeat-containing protein

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Macromolecule #6: Putative chromatin structure remodeling complex protein

MacromoleculeName: Putative chromatin structure remodeling complex protein
type: protein_or_peptide / ID: 6 / Details: THE C-TERMINAL 6AA CONTAINS 6XHIS TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 80.29125 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSGQSGKWRE DQVLVICPGS QTTLAQLGCN ELTPPARRFP TRMFRDPEDP SKWRPYHTYK RKKEGTTGEG EDKDEWEWVE DVDSIEGAV YPMQAGRIVQ MDAFLALLEH VHSQMTTTYH NTPILLMASP QWTRPDHEAI ARYIFEKTKT PALCLIHSGL A TQYGLKWP ...String:
MSGQSGKWRE DQVLVICPGS QTTLAQLGCN ELTPPARRFP TRMFRDPEDP SKWRPYHTYK RKKEGTTGEG EDKDEWEWVE DVDSIEGAV YPMQAGRIVQ MDAFLALLEH VHSQMTTTYH NTPILLMASP QWTRPDHEAI ARYIFEKTKT PALCLIHSGL A TQYGLKWP NMTVVDIGYE KVDVTCIYDG RIVSQKNVGP RPGVGGPEET DISGGEVFTR SLLKLLESKG FNYDMAEQLK RS NICEVLP YAPEHPDLME IPPEIDPNAP NAPQIVEPGD DVDTGADTKE VEDGVLDVAN IVASGQTREF LAKREREKAE REA AKKKKG KDKEAGSGDA PPKPVKLPNS KRYKNIFHYE ELVTEEVPVQ PSPPPPPPAA TDSNGDVTMA DAAPAENKEG EQAS KPEGE QPKAEGEQPK TEGEQPKTAE ESSETKPEEA ADSEKKLEEQ QQQSSEQKDG QTEQKDQAQP QADQQQANGA AQQTE RITR RVRRDIEVGP ERFQFASRRE IDRIATAIYR AIQSIDDIYM RPALWENIVF VGNGARIRGL KDNIIQTLTH RYLISP SSA SMFVGDLPSN IGTPSGTGSQ TPNSAVGAGG PPHQLPGAGA GSGVNPLLQA ATTAAAAQSN LTVPGQTPGG DANNAGG GT SQSFHSQTPT VIKTAQLPTY LSEWSKHGFE EAMFLGSLVA ARLAFCIHNL DAQGLEAQKG MSLTRVDYNE LGPKGIRS H SMLALEHHHH HH

UniProtKB: Chromatin structure remodeling complex protein

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Macromolecule #7: Actin-related protein 4

MacromoleculeName: Actin-related protein 4 / type: protein_or_peptide / ID: 7 / Details: THE C-TERMINAL 6AA CONTAINS 6XHIS TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 52.83234 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSQQPLSSSV QPADIYGGDE VSALVLDPGY CNTRAGFAGE EMPKQVIPSF YGHVDGRDLF GDEVIVPRAG FEVRNYMNRD SMVEDWDAA TRVWEYLLVQ RLQPPRPTPA SKNGLNVSDD GDVQMEDSAP NEDALDALEK PLTENPLLMT EAPWNTPKAR E KAIEVVME ...String:
MSQQPLSSSV QPADIYGGDE VSALVLDPGY CNTRAGFAGE EMPKQVIPSF YGHVDGRDLF GDEVIVPRAG FEVRNYMNRD SMVEDWDAA TRVWEYLLVQ RLQPPRPTPA SKNGLNVSDD GDVQMEDSAP NEDALDALEK PLTENPLLMT EAPWNTPKAR E KAIEVVME NWGTPAFWLS RTPVLAAFAA GKATALVIDV GGANTSVTAI HDGMVLKRSI QRSPAAGVWL SGQIRSMWKS QD PPVNVVP TFMVENKKPV EAGAPPDCRL RNFGFPIHDS FRAFEEERVL TEFKESVVEV WRGPGKYLNP GNEDFAKTQP GRV FEFPDG SNQMWREQRY RVAEGMWDET AAYPSLNPDE AAITKAQTIP ALIKAALDGV DVDLRPNLLG NVVVTGSTSL LNGF NDRLN HELTNMYPGL KIKLHAAGLT SERRFGAWIG GSILASLGTF HQMWISRKEY EENGAGIVEK RCKLEHHHHH H

UniProtKB: Actin-related protein 4

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Macromolecule #8: Ssr1

MacromoleculeName: Ssr1 / type: protein_or_peptide / ID: 8 / Details: THE C-TERMINAL 8AA ENCODES A FLAG TAG / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 75.831109 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MEEGSVSYGT PTTGASPGAN PILAQPPLPD AGDQSEDIQM SESPAIKQDS TTPAPGAENA AERAQAARED TEMGDAPKNE AGHADATGQ NEGNGETKTK DFIENAAREH LIAQTHAIIL PSYSTWFDMN TIHDIERKAL PEFFNNRNRS KTPAVYKDYR D FMINAYRL ...String:
MEEGSVSYGT PTTGASPGAN PILAQPPLPD AGDQSEDIQM SESPAIKQDS TTPAPGAENA AERAQAARED TEMGDAPKNE AGHADATGQ NEGNGETKTK DFIENAAREH LIAQTHAIIL PSYSTWFDMN TIHDIERKAL PEFFNNRNRS KTPAVYKDYR D FMINAYRL NPTEYLTVTA CRRNLAGDVC AIMRVHAFLE QWGLINYQVD ADQRPSHVGP PFTGHFKIIV DTPRGLQPWQ PA ADPVITE GKPNKDTEAK ASATPAPKTE LNLEVGRNIY EANAKHNKIN KSDKPNGEAS AAATNGVTGA DELPKAPIMK VNC YNCGTD CTRIYYHSPQ SDPNSKVKYD LCSTCYLEGR FPGNQTSAHY TRMENPTYSS TLDRDAPWSD AEILRLLEAL ERYD EDWNQ IAEYVGTRTR EECVLQFLQL DIEDKYLESE RLDAPIGLQM LGSHGGQLPF SQSDNPVMSV VSFLASLADP ASTAA AANK SAEILKQNLR NKLEGGSKTA ETANGKGKEK EGTVSSGDSM DVDNKETGSG NGSSEKLTPS QLANIPLAAM GARASA LAS HEEREMTRLV SAAVNVMLEK LELKLKYFNE MEAMLQAERR ELERARQQLF LDRLTFKRRV REVQEVLRQA AATGGEQ GF RMAQEVLAGA AAPGAGNGMT FQPAPAASAV QPLSAEGPVK SYEADYKDDD DK

UniProtKB: Uncharacterized protein

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Macromolecule #9: DM2 domain-containing protein

MacromoleculeName: DM2 domain-containing protein / type: protein_or_peptide / ID: 9 / Details: THE C-TERMINAL 8AA ENCODES A FLAG TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 61.496863 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MQQQFRGYGQ HAPTPPRPGS GPHGVPPRRG GIGPMMSAGP HPQAPLSAAQ LNQQHQAQQQ ANHLAKLRSR KPTDKNLPDG VEEIVIDHG YVVDAYRQLR DFERRLDATM TRKRLDIVDS LSRNTKRYKT MRVWISNTVE DQYWQNNSLN VDTFDFSSNL E ASYRLKIE ...String:
MQQQFRGYGQ HAPTPPRPGS GPHGVPPRRG GIGPMMSAGP HPQAPLSAAQ LNQQHQAQQQ ANHLAKLRSR KPTDKNLPDG VEEIVIDHG YVVDAYRQLR DFERRLDATM TRKRLDIVDS LSRNTKRYKT MRVWISNTVE DQYWQNNSLN VDTFDFSSNL E ASYRLKIE GRLLEDEEDP SSDDDEPSAN GGDKMDTDSV PAAKPAKPAK AVPAKHGQRY RFSHFFKALT VEFDKSRVAA AA AAGRETT IEWKKPERTP AGAANLPAMA DFDEITFKRP GDENVNVIIN LYRHEDPERF ELSPELAEIV DMKEATRQEA VMA VWEYIK LNKLQEDEEK RNFRCDDMLK KIIPRDSGFI PHLNEYLTPH LRPLSPIKLP YTIRVDEEFH KNPSPTIYDI RVLV DDPLR TRQSSSPYLP FPSNPSYATT LKEIAALDDQ LATLMQAVAH SKAKHAFLSG MARDPVGFVK GWLSSQKRDL DIILG EANR AGRDGVTGGL GAGGGEEAVT AGDEWRRGGK ESVWASQNAR ESVNVLLAKQ PLVLRDYKDD DDK

UniProtKB: DM2 domain-containing protein

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Macromolecule #10: DUF1750-domain-containing protein

MacromoleculeName: DUF1750-domain-containing protein / type: protein_or_peptide / ID: 10 / Details: THE C-TERMINAL 8AA ENCODES A FLAG TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 81.947281 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAVVDPSQNV HGDLLPHIHL ISTFRYATMP RVELQEVTKW LLQAPKIARD TSPFYWTYLD CPADGSILLT WQPTARRGTE FATDGYIWA GPEVQFQQNM GNGLLLEIYF QRAGYRMGEQ YAVHSRRRFR LLLAPGQAPN PNLQVDPNLW IVHYGPAEKN D RLPVSAIV ...String:
MAVVDPSQNV HGDLLPHIHL ISTFRYATMP RVELQEVTKW LLQAPKIARD TSPFYWTYLD CPADGSILLT WQPTARRGTE FATDGYIWA GPEVQFQQNM GNGLLLEIYF QRAGYRMGEQ YAVHSRRRFR LLLAPGQAPN PNLQVDPNLW IVHYGPAEKN D RLPVSAIV LPPPIHQLLN FRQHLLSMGQ IIRKEFMLSD RVNWPQIPFP TRATSMYAPP IPQRHIPQAM AYPPHPGQPI AP APKRRGG QSSSSSSAAA AAAAAAAQAA QMAGAAAGYH PDVFNDEEDV SAGDMFDHLT PRELSLARYQ QNHEWMEEIL LSP YQIGQI EVSDLGLGKK GELAALTEGI FEAQGFDALQ RGPKKPYTGK LDPGLADEFR KRVEERNAAV KAEIEEMKAK HEKM MAKFK RSAVIKQAEQ ELRFAVQETG TEFWRLEGKI DEGEEAPSQK IITKSLDEIV ARVEELVGKH ATVVKDVHRI QDGGY QEPQ PEPPAPTAAP SAGAVGDMSC QASHAGSNGS GVLIGSDHDI DMGGTAGSLL DQMHSSAGFS STSTPMNNFP TPQAHL PVS SIPSSAATPG VVSVSSPNPV PPTAGVPAAQ VQQQQDVQMG GTEPAAVVPA KEATTATEQG ISSGEGDWVV VGKEGIP PA PGPSNITQPP AAPATAPLAT TPAATGPGGA PTPGSTALIE TDFADLDTAG DALASYEAAA AGSGSQNGDD HEGGRLED E EDMDMMVGGE ESAFGEAFEG VEAANAAVGQ GGVEGGGDVS DYKDDDDK

UniProtKB: DUF1750-domain-containing protein

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Macromolecule #11: ARID domain-containing protein

MacromoleculeName: ARID domain-containing protein / type: protein_or_peptide / ID: 11
Details: THE N-TERMINAL 62AA CONTAINS 3XFLAG TAG, 3C SITE, AND THE CLONING LINKER.
Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 140.244969 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: GSPQQNKTAA LAQHDEADYK DHDGDYKDHD IDYKDDDDKG GSGGSLEVLF QGPGGSGGSG TMNSSWISDS AAVPSAVPNH NGNGFPQLS DPSAVAAGNM MDPSAFMANP AQFNAQFANP QQIVMQPNGP GPGAGPSAPG APGGPAGPAG PMRNASPSFP N PMYQTNSV ...String:
GSPQQNKTAA LAQHDEADYK DHDGDYKDHD IDYKDDDDKG GSGGSLEVLF QGPGGSGGSG TMNSSWISDS AAVPSAVPNH NGNGFPQLS DPSAVAAGNM MDPSAFMANP AQFNAQFANP QQIVMQPNGP GPGAGPSAPG APGGPAGPAG PMRNASPSFP N PMYQTNSV VPSKRPRPRE DGMAQSPRPA PGMLPTSRAE TPQQSGFQGF QQPPITQPPS TQPSPYPHLQ TNGSTNATPS PI MANQMRP GSVPQRVASS SPHPFSPAAQ QFPQTPSMPS EHGGTPQPFM QQNAFQQNFN PQFAPGQSPA RPSPTPNPIA GQM MPQQMG QVPGQMPGQM PGQMAGQIPG QMAGQMPGQM PGQMPGQMPG QMPGQMPGQM PGQMGQLPQQ MQMAGQIPGQ IPGQ MPGQL PGQMMPGQLP GQMPGQLPGQ VPGQIPGQLP GQMPGQMPGQ MPVQLPGQMP GQMPGQMVGQ APNIMLQQQL AQARN PLEQ QKILYQMQLQ QQQLQRASIQ MQQMAAGQNM MQAQPGPNQA QAQARNMMAA APRPGMPNGQ IPPGAMRPQP GMAPQP LRA PPPDQFMKHL TTFMSSKGLP FEMNPVIEGR QISLYNLFAI VYTKAGGYRS VTQNNAWVQV AQAMGFQPSQ LPSAAQQ LR AAYERNLVRF EEVWTTQQKM RMQQQGAMGH PQAMGQATPT KMMPGGQMPP QMMQPVAQPQ LQQGLQPGQV QSPVKPPG A QHPNGFPAGQ PVPGQQSMLA SQGHVRNNLS RTMSTPTAEG FPMPSPAQSK AGTESLPGST HPESHGIPEQ DIVLKISTP FHTNPEEYVP CSQKLTTYGG HELNALWKIG EELQRSKIDV PSPLELGNVD IHALTKSIQS GIHGEVRVAL DTLAILTHKD HHWVAPNHP FPVPQIDLRH CEELVEALIE CAEEQLDLLV ENSEETSDEI TVPSYEDIVR NCKIEKFSLQ NVTMLGTSDH D LNRAVDRL ICITTILRNF SCHEENHGPL ADETVVKFIC VVIRYLGTRE MLMRTYNDTL DLMKDLVTLL SNIAPAIEIP GR EQAFCLL QFLLAFVPQP GPTWSDGRLF FPSYEPALHP YLPHAVDCLA KLLARDEPNR TYYKTIFSAE PALSTDPPCE LLT RTFALA IAPIPDHTRD HRHPMPSLVD VRKPILMQGL LAADIMAGLA PGADSGVTRA WLASGDGFAQ NLFLLTRQLS AQFE TGTIV QTRPPPGSRG VPSQPTVKRD MDLLYIIGLA ISMLRKLCEK ARDPSDPALG GIPPNVIPPK ESVLGALQMQ AQEWG KPGL LADLLALESM AEEVVSV

UniProtKB: ARID domain-containing protein

+
Macromolecule #12: Snf5

MacromoleculeName: Snf5 / type: protein_or_peptide / ID: 12 / Details: THE C-TERMINAL 8AA ENCODES A FLAG TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 87.78225 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAAPQVSAAS AAGGDVDGST SSSIAPATAA PTSTSSAANA PSAVPGGASS KSTTPQHDTP LAPPVRDKES FNRMLVERFQ TRDWLHSAA IKEAQMRAER DTKDMLARAS DYRTYKEFYA NYPSRLYGEG YRGYGNGFTE NGSTTKIIYP SQKPRPGRRV T PPLKFSKK ...String:
MAAPQVSAAS AAGGDVDGST SSSIAPATAA PTSTSSAANA PSAVPGGASS KSTTPQHDTP LAPPVRDKES FNRMLVERFQ TRDWLHSAA IKEAQMRAER DTKDMLARAS DYRTYKEFYA NYPSRLYGEG YRGYGNGFTE NGSTTKIIYP SQKPRPGRRV T PPLKFSKK DMKKQAEQHE ELVPVRIDVD WDRIKLRDTF TFNLHERLVS VEHFASQFVE DMGLNPMGQD KPVYDQVVQQ MH EQLNDFY PFCYTEEDAL DPELPYSAYK NDEMRILIKL NITIGAHTLV DQFEWDINNP LNSPEEFAAS MTRDLSLSGE FTT AIAHCI REQAQLFTRS LYSVGHPFDG RPIEDPDLVA AFLPSPLPSV FRPQQQAKDY APYLYENTEA ELERTETMFS REQR RQKRS INRRGGPSLP DLKERQRTIR TSIVSSVLPG AALTIEESRL FKRTIGSSGV TGRGKRTARD GDISDSEDDD DSAPD SPAM QPQGTRTRGL RGAAATAAQR MANLGRSETP EAVIHHHETR TSRRLGREAT REQTEEPLQH IVTLKVSPSK LRKLMR DLR MRPINSSSAT PTASHQRAPS TATPAPMGPP STPSTSNQQQ QQQQQQQQQQ QQQQQQQQQQ QQQQQNQSKP NSSSNLQ NQ IGRVPAPPPS GPNGNAPNQP PPPPPEWLVN ALNELSKSYP NDSFEAIMRY CAIDTETNTA LQLPLKGWPD EPIPPNVQ F YWLPRIRCRD CPGKSYTAGP DTTVQNFEVH LTWKGHREKV AARLAKQQAG GQSASADYKD DDDK

UniProtKB: Uncharacterized protein

+
Macromolecule #13: Nuclear localization protein

MacromoleculeName: Nuclear localization protein / type: protein_or_peptide / ID: 13 / Details: THE C-TERMINAL 8AA ENCODES A FLAG TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 76.208398 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MYAAPPNGVE SATINPAALN SADPLALSRG LKRSRSPDDF ADTGPNGPAG DDGGDKPRKR GRPMKPLPSG TATASLPPVP SAPQNAPPQ TPQNQNATLP VQTPSSYTTT TAQASPPKPA PSKPLKALPT VRDHTTDILA PSGDEYLVRE IDEAGEKKVL P NGQLLGGR ...String:
MYAAPPNGVE SATINPAALN SADPLALSRG LKRSRSPDDF ADTGPNGPAG DDGGDKPRKR GRPMKPLPSG TATASLPPVP SAPQNAPPQ TPQNQNATLP VQTPSSYTTT TAQASPPKPA PSKPLKALPT VRDHTTDILA PSGDEYLVRE IDEAGEKKVL P NGQLLGGR QYKCRTFCVP NRGDKLFMLA TECARVLGYR DSYLLFNKNR SLYKIIANQA EKDDLVAQEI LPFSYRSRQI AI VTARSMF RQFGSRMIVN GRRVRDDYWE SKARKQGFTE DDPAGEKRPG ASRARAAAEA SHAASLMAAP HGEIVYSTSQ FGP QPPLVP PGMLGGPATT RPSMITLGPD YSDTRSRDYS SILKNGPRQE ITGPPYQDRI QPTPLTELHA QAHHAAEFNR TLNQ QREMR ADYMNSIWRR PHEQPVPPAL PAPVSAPDPV VPPAVPPSRT SAATHTSSLQ PPAILPNQSP QLMMTAAPYS QSIHA PNPV ASQGSLRAGM AHHRSVPQAT FQQAARGPTH HSSATGSTTT ASLAPAPAPA QPNYTYSQSA AAAPNQMWPP APQTPQ HGA PGAGPAPGAP SPYSAYTTAP AQPHQSTPGN AGGPGTPQLR HGSAPSAAAP APGSNPAPTG APAPGPSPLA PYSGLPG MP GQGYGPVYGA EQTPRGYMHH QTWNTGPGQG QGQQNQQQGQ QQPGQQGQGQ GQQTQPQSAA VAAGGWWGGQ GQDYKDDD D K

UniProtKB: Nuclear localization protein

+
Macromolecule #14: LYR family protein

MacromoleculeName: LYR family protein / type: protein_or_peptide / ID: 14 / Details: THE C-TERMINAL 6AA ENCODES A 6XHIS TAG / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Thermochaetoides thermophila DSM 1495 (fungus)
Molecular weightTheoretical: 66.726359 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAPPQFRTAT QTRRGARSGF VEQDDFEGLP VRQWRQEWVT YTPPVPQEVT QQSDRWAVEL PFGMPRESHL LPPHSQELLR AARSGRLYK RPAPEEEDVD VEVDTIKGEK KDWETPNEGF TFKAWKQVPR NAEAADISYL AKRPKNIITL AAKVEPAQPT G PTITRAIV ...String:
MAPPQFRTAT QTRRGARSGF VEQDDFEGLP VRQWRQEWVT YTPPVPQEVT QQSDRWAVEL PFGMPRESHL LPPHSQELLR AARSGRLYK RPAPEEEDVD VEVDTIKGEK KDWETPNEGF TFKAWKQVPR NAEAADISYL AKRPKNIITL AAKVEPAQPT G PTITRAIV RRIDAAGNPY EQTITLTEGQ KVDGEIISTT VVPAPTTQPE IVPQQTTPAR RRPPPPKRKA KGVGRGRKKG KL PLPMHAT RSQNAAAAGA DAIKTEDNGV EGVKVEDAED SANPDSEMAD VSGVPSDEEE GEEDEEVDEE GGDEEGGETP NVG STNGDV PSQEPEDTEM SDVPQQPSTE EASQPPTSEG EPPVQKVVRF QTPSIGTKLE GSPLKNVMVA SPTEPAAPSN DSIP PSVAP PSPPSDQAME VDQPDNDKTA PTATTITETP EPQIKLEQIP SEPLSQPPAE QPAPTTQTPS QDAAAATESE EPPSS ASAN PVDPLKPPAS PALLPTVTND NEDDGLNLLD SLERELNKQE EAANAAKVQN QAAYAGGGGD GVGAGNPGAG GAEQAA EEE EVDTLAVATE EGKGKVAVGD AGAGSEADKG GEEKQEKATE ESAEGATQEV KTEGEKPEHH HHHH

UniProtKB: LYR family protein

+
Macromolecule #15: DNA (167-MER)

MacromoleculeName: DNA (167-MER) / type: dna / ID: 15 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 51.333703 KDa
SequenceString: (DC)(DT)(DG)(DG)(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) ...String:
(DC)(DT)(DG)(DG)(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)(DT)(DC)(DC)(DC)(DT)(DA)(DG)(DT) (DC)(DT)(DC)(DC)(DA) (DG)(DG)(DC)(DA) (DC)(DG)(DT)(DG)(DT)(DC)(DA)(DG)(DA)(DT) (DA)(DT)(DA)(DT)(DA)(DC) (DA)(DT)(DC) (DC)(DT)(DG)(DT)(DG)(DC)(DA)(DT)(DG)(DT) (DA)(DT)(DT)(DG)(DA)(DA)(DC) (DA)(DG) (DC)(DG)(DA)(DC)(DC)

+
Macromolecule #16: DNA (167-MER)

MacromoleculeName: DNA (167-MER) / type: dna / ID: 16 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 51.773973 KDa
SequenceString: (DG)(DG)(DT)(DC)(DG)(DC)(DT)(DG)(DT)(DT) (DC)(DA)(DA)(DT)(DA)(DC)(DA)(DT)(DG)(DC) (DA)(DC)(DA)(DG)(DG)(DA)(DT)(DG)(DT) (DA)(DT)(DA)(DT)(DA)(DT)(DC)(DT)(DG)(DA) (DC) (DA)(DC)(DG)(DT)(DG)(DC) ...String:
(DG)(DG)(DT)(DC)(DG)(DC)(DT)(DG)(DT)(DT) (DC)(DA)(DA)(DT)(DA)(DC)(DA)(DT)(DG)(DC) (DA)(DC)(DA)(DG)(DG)(DA)(DT)(DG)(DT) (DA)(DT)(DA)(DT)(DA)(DT)(DC)(DT)(DG)(DA) (DC) (DA)(DC)(DG)(DT)(DG)(DC)(DC)(DT) (DG)(DG)(DA)(DG)(DA)(DC)(DT)(DA)(DG)(DG) (DG)(DA) (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)(DC)(DC)(DA)(DG)

+
Macromolecule #17: ADENOSINE-5'-DIPHOSPHATE

MacromoleculeName: ADENOSINE-5'-DIPHOSPHATE / type: ligand / ID: 17 / Number of copies: 1 / Formula: ADP
Molecular weightTheoretical: 427.201 Da
Chemical component information

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

Concentration2 mg/mL
BufferpH: 8
Component:
ConcentrationFormulaName
30.0 mMKClPotassium chloride
2.0 mMMgCl2Magnesium chloride
20.0 mMC8H18N2O4SHEPEs
0.5 mMC10H15N5O10P2ADP
1.0 mMBeSO4Beryllium sulfate
8.0 mMNaFsodium fluoride
VitrificationCryogen name: ETHANE
DetailsThis sample was homogenous and monodisperse.

-
Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.4 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

+
Image processing

Particle selectionNumber selected: 761943
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.46 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 108901
Initial angle assignmentType: PROJECTION MATCHING
Final angle assignmentType: MAXIMUM LIKELIHOOD

-
Atomic model buiding 1

RefinementSpace: REAL / Protocol: FLEXIBLE FIT
Output model

PDB-23il:
Cryo-EM structure of Chaetomium thermophilum SWI/SNF bound to a nucleosome

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