EMDB-31926: The overall structure of human chromatin remodeling PBAF-nucleoso...

Basic information

Entry

Database: EMDB / ID: EMD-31926

• Title: The overall structure of human chromatin remodeling PBAF-nucleosome complex
• Map data: The structure of human chromatin remodeling PBAF-nucleosome complex

Sample

• Complex: The motor-nucleosome module of human chromatin remodeling PBAF-nucleosome complex
  • Protein or peptide: x 17 types
  • DNA: x 2 types
• Ligand: x 3 types

• Keywords: complex / DNA BINDING PROTEIN

Function / homology

Function:

single stranded viral RNA replication via double stranded DNA intermediate / positive regulation of glucose mediated signaling pathway / bBAF complex / nBAF complex / npBAF complex / brahma complex / positive regulation of norepinephrine uptake / positive regulation of telomere maintenance in response to DNA damage / regulation of DNA strand elongation / perichromatin fibrils / negative regulation of androgen receptor signaling pathway / GBAF complex / positive regulation of transcription of nucleolar large rRNA by RNA polymerase I / cellular response to cytochalasin B / neural retina development / N-acetyltransferase activity / Formation of the embryonic stem cell BAF (esBAF) complex / EGR2 and SOX10-mediated initiation of Schwann cell myelination / regulation of transepithelial transport / Formation of the canonical BAF (cBAF) complex / RSC-type complex / morphogenesis of a polarized epithelium / Formation of annular gap junctions / Formation of the dystrophin-glycoprotein complex (DGC) / XY body / Formation of the polybromo-BAF (pBAF) complex / structural constituent of postsynaptic actin cytoskeleton / Gap junction degradation / GBP-mediated host defense / Formation of neuronal progenitor and neuronal BAF (npBAF and nBAF) / protein localization to adherens junction / Formation of the non-canonical BAF (ncBAF) complex / Cell-extracellular matrix interactions / histone H3K14ac reader activity / regulation of G0 to G1 transition / dense body / RNA polymerase I preinitiation complex assembly / Tat protein binding / Folding of actin by CCT/TriC / cellular response to fatty acid / Regulation of CDH1 Function / Ino80 complex / postsynaptic actin cytoskeleton / host-mediated activation of viral transcription / apical protein localization / Adherens junctions interactions / Prefoldin mediated transfer of substrate to CCT/TriC / microtubule nucleation / RHOF GTPase cycle / adherens junction assembly / regulation of double-strand break repair / SWI/SNF complex / negative regulation of G1/S transition of mitotic cell cycle / Sensory processing of sound by outer hair cells of the cochlea / nucleosome disassembly / ATP-dependent chromatin remodeler activity / spinal cord development / tight junction / positive regulation of T cell differentiation / regulation of mitotic metaphase/anaphase transition / Sensory processing of sound by inner hair cells of the cochlea / nuclear androgen receptor binding / maintenance of blood-brain barrier / Interaction between L1 and Ankyrins / apical junction complex / regulation of nucleotide-excision repair / nuclear chromosome / positive regulation of stem cell population maintenance / histone acetyltransferase activity / NuA4 histone acetyltransferase complex / regulation of chromosome organization / regulation of norepinephrine uptake / transporter regulator activity / lncRNA binding / Recycling pathway of L1 / positive regulation of double-strand break repair / cortical cytoskeleton / Regulation of MITF-M-dependent genes involved in pigmentation / establishment or maintenance of cell polarity / negative regulation of cell differentiation / nitric-oxide synthase binding / RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known / regulation of DNA replication / Differentiation of naive CD4+ T cells to T helper 2 cells (Th2 cells) / brush border / EPH-ephrin mediated repulsion of cells / RHO GTPases Activate WASPs and WAVEs / regulation of synaptic vesicle endocytosis / positive regulation of myoblast differentiation / kinesin binding / ATP-dependent activity, acting on DNA / positive regulation of Wnt signaling pathway / histone reader activity / positive regulation of signal transduction by p53 class mediator / regulation of protein localization to plasma membrane / RHO GTPases activate IQGAPs / Regulation of TP53 Activity through Acetylation / positive regulation of double-strand break repair via homologous recombination / regulation of G1/S transition of mitotic cell cycle / axonogenesis

Domain/homology:

PHD finger protein 10 / RFX DNA-binding domain / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 / : / SMARCC, SWIRM-associated domain / SMARCC, N-terminal / : / SWIRM-associated domain at the N-terminal / SWIRM-associated domain at the C-terminal / MarR-like, BRCT and chromo domains module profile. / : / SWI/SNF Subunit INI1, DNA binding domain / DNA-binding RFX-type winged-helix domain / RFX-type winged-helix DNA-binding domain profile. / SWIB domain / SWI complex, BAF60b domains / Protein polybromo-1, Bromodomain 5 / Chromatin-remodeling complex component Sfh1/SNF5 / : / SWIFT domain / SWI/SNF complex subunit BRG1 / SMARCC, C-terminal / SWIRM-associated region 1 / Remodelling complex subunit Rsc/polybromo / SNF5/SMARCB1/INI1 / SNF5 / SMARCB1 / INI1 / Protein of unknown function DUF3512 / Domain of unknown function (DUF3512) / : / BRK domain / BRK domain / BRK domain superfamily / domain in transcription and CHROMO domain helicases / QLQ / Glutamine-Leucine-Glutamine, QLQ / QLQ domain profile. / QLQ / Snf2-ATP coupling, chromatin remodelling complex / Snf2, ATP coupling domain / Snf2-ATP coupling, chromatin remodelling complex / domain in helicases and associated with SANT domains / 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. / Bromo adjacent homology domain / BAH domain / SWIB/MDM2 domain superfamily / Bromo adjacent homology (BAH) domain / Bromo adjacent homology (BAH) domain superfamily / BAH domain profile. / HMG (high mobility group) box / SANT domain profile. / Chromo/chromo shadow domain / SANT domain / Chromatin organization modifier domain / HMG boxes A and B DNA-binding domains profile. / high mobility group / High mobility group box domain / High mobility group box domain superfamily / 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 / BRCT domain superfamily / PHD-finger / Actins signature 1. / Actin, conserved site / Actins signature 2. / Actin/actin-like conserved site / Actins and actin-related proteins signature. / Zinc finger PHD-type signature. / Zinc finger C2H2 type domain signature. / Actin / Actin family / Actin / Zinc finger PHD-type profile. / Zinc finger C2H2-type / Zinc finger, PHD-finger / Zinc finger, PHD-type / PHD zinc finger / : / Histone H2A conserved site / Histone H2A signature. / Histone H2B signature. / Histone H2B

Component:

Histone H3 / Actin-like protein 6A / Histone H2B 1.1 / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 4 / Actin, cytoplasmic 1 / Histone H4 / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 / AT-rich interactive domain-containing protein 2 / Histone H2A / Protein polybromo-1 / SWI/SNF complex subunit SMARCC2 / PHD finger protein 10 / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 / Bromodomain-containing protein 7

• Biological species: Homo sapiens (human) / Xenopus laevis (African clawed frog) / unidentified (others) / synthetic construct (others)
• Method: single particle reconstruction / cryo EM / Resolution: 3.4 Å
• Authors: Chen ZC / Chen KJ

Funding support

China, 1 items

Organization	Grant number	Country
National Natural Science Foundation of China (NSFC)		China

• Citation: Journal: Nature / Year: 2022; Title: Structure of human chromatin-remodelling PBAF complex bound to a nucleosome.; Authors: Junjie Yuan / Kangjing Chen / Wenbo Zhang / Zhucheng Chen / ; Abstract: DNA wraps around the histone octamer to form nucleosomes, the repeating unit of chromatin, which create barriers for accessing genetic information. Snf2-like chromatin remodellers couple the energy of ATP binding and hydrolysis to reposition and recompose the nucleosome, and have vital roles in various chromatin-based transactions. Here we report the cryo-electron microscopy structure of the 12-subunit human chromatin-remodelling polybromo-associated BRG1-associated factor (PBAF) complex bound to the nucleosome. The motor subunit SMARCA4 engages the nucleosome in the active conformation, which reveals clustering of multiple disease-associated mutations at the interfaces that are essential for chromatin-remodelling activity. SMARCA4 recognizes the H2A-H2B acidic pocket of the nucleosome through three arginine anchors of the Snf2 ATP coupling (SnAc) domain. PBAF shows notable functional modularity, and most of the auxiliary subunits are interwoven into three lobe-like submodules for nucleosome recognition. The PBAF-specific auxiliary subunit ARID2 acts as the structural core for assembly of the DNA-binding lobe, whereas PBRM1, PHF10 and BRD7 are collectively incorporated into the lobe for histone tail binding. Together, our findings provide mechanistic insights into nucleosome recognition by PBAF and a structural basis for understanding SMARCA4-related human diseases.

History

Deposition	Sep 7, 2021	-
Header (metadata) release	May 18, 2022	-
Map release	May 18, 2022	-
Update	Aug 12, 2026	-
Current status	Aug 12, 2026	Processing site: PDBj / Status: Released

Map

• File: Download / File: emd_31926.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
• Annotation: The structure of human chromatin remodeling PBAF-nucleosome complex
• Voxel size: X=Y=Z: 1.0825 Å

Density

Contour Level	By AUTHOR: 0.0062
Minimum - Maximum	-0.020798853 - 0.05585075
Average (Standard dev.)	0.00017559006 (±0.0013961836)

• Symmetry: Space group: 1

Details

EMDB XML:

Map geometry	Axis order X Y Z Origin 0 0 0 Dimensions 360 360 360 Spacing 360 360 360
Cell	A=B=C: 389.69998 Å α=β=γ: 90.0 °

Supplemental data

Sample components

Entire : The motor-nucleosome module of human chromatin remodeling PBAF-nu...

• Entire: Name: The motor-nucleosome module of human chromatin remodeling PBAF-nucleosome complex

Components

• Complex: The motor-nucleosome module of human chromatin remodeling PBAF-nucleosome complex
  • Protein or peptide: Histone H4
  • Protein or peptide: Histone H2A
  • Protein or peptide: Histone H2B 1.1
  • Protein or peptide: Histone H3
  • DNA: DNA (207-MER)
  • DNA: DNA (207-MER)
  • Protein or peptide: Isoform 2 of Transcription activator BRG1
  • Protein or peptide: Actin-like protein 6A
  • Protein or peptide: Actin, cytoplasmic 1
  • Protein or peptide: AT-rich interactive domain-containing protein 2,AT-rich interactive domain-containing protein 2
  • Protein or peptide: PHD finger protein 10
  • Protein or peptide: Isoform 2 of Bromodomain-containing protein 7
  • Protein or peptide: unknown
  • Protein or peptide: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1
  • Protein or peptide: SWI/SNF complex subunit SMARCC2
  • Protein or peptide: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1
  • Protein or peptide: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1
  • Protein or peptide: Protein polybromo-1
  • Protein or peptide: unknown
• Ligand: BERYLLIUM TRIFLUORIDE ION
• Ligand: MAGNESIUM ION
• Ligand: ADENOSINE-5'-DIPHOSPHATE

Supramolecule #1: The motor-nucleosome module of human chromatin remodeling PBAF-nu...

• Supramolecule: Name: The motor-nucleosome module of human chromatin remodeling PBAF-nucleosome complex; type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#19
• Source (natural): Organism: Homo sapiens (human)

Macromolecule #1: Histone H4

• Macromolecule: Name: Histone H4 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
• Source (natural): Organism: Xenopus laevis (African clawed frog)
• Molecular weight: Theoretical: 11.394426 KDa
• Recombinant expression: Organism: Escherichia coli (E. coli)

Sequence

String:

MSGRGKGGKG LGKGGAKRHR KVLRDNIQGI TKPAIRRLAR RGGVKRISGL IYEETRGVLK VFLENVIRDA VTYTEHAKRK TVTAMDVVY ALKRQGRTLY GFGG

UniProtKB: Histone H4

Macromolecule #2: Histone H2A

• Macromolecule: Name: Histone H2A / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
• Source (natural): Organism: Xenopus laevis (African clawed frog)
• Molecular weight: Theoretical: 14.109436 KDa
• Recombinant expression: Organism: Escherichia coli (E. coli)

Sequence

String:

MSGRGKQGGK TRAKAKTRSS RAGLQFPVGR VHRLLRKGNY AERVGAGAPV YLAAVLEYLT AEILELAGNA ARDNKKTRII PRHLQLAVR NDEELNKLLG RVTIAQGGVL PNIQSVLLPK KTESSKSAKS K

UniProtKB: Histone H2A

Macromolecule #3: Histone H2B 1.1

• Macromolecule: Name: Histone H2B 1.1 / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
• Source (natural): Organism: Xenopus laevis (African clawed frog)
• Molecular weight: Theoretical: 13.965265 KDa
• Recombinant expression: Organism: Escherichia coli (E. coli)

Sequence

String:

MPEPAKSAPA PKKGSKKAVT KTQKKDGKKR RKSRKESYAI YVYKVLKQVH PDTGISSKAM SIMNSFVNDV FERIAGEASR LAHYNKRST ITSREIQTAV RLLLPGELAK HAVSEGTKAV TKYTSAK

UniProtKB: Histone H2B 1.1

Macromolecule #4: Histone H3

• Macromolecule: Name: Histone H3 / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO
• Source (natural): Organism: Xenopus laevis (African clawed frog)
• Molecular weight: Theoretical: 15.435126 KDa
• Recombinant expression: Organism: Escherichia coli (E. coli)

Sequence

String:

MARTKQTARK STGGKAPRKQ LATKAARKSA PATGGVKKPH RYRPGTVALR EIRRYQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSSA VMALQEASEA YLVALFEDTN LCAIHAKRVT IMPKDIQLAR RIRGERA

UniProtKB: Histone H3

Macromolecule #7: Isoform 2 of Transcription activator BRG1

• Macromolecule: Name: Isoform 2 of Transcription activator BRG1 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO; EC number: Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 169.597938 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MQALGQQNRG PTPFNQNQLH QLRAQIMAYK MLARGQPLPD HLQMAVQGKR PMPGMQQQMP TLPPPSVSAT GPGPGPGPGP GPGPGPAPP NYSRPHGMGG PNMPPPGPSG VPPGMPGQPP GGPPKPWPEG PMANAAAPTS TPQKLIPPQP TGRPSPAPPA V PPAASPVM PPQTQSPGQP AQPAPMVPLH QKQSRITPIQ KPRGLDPVEI LQEREYRLQA RIAHRIQELE NLPGSLAGDL RT KATIELK ALRLLNFQRQ LRQEVVVCMR RDTALETALN AKAYKRSKRQ SLREARITEK LEKQQKIEQE RKRRQKHQEY LNS ILQHAK DFKEYHRSVT GKIQKLTKAV ATYHANTERE QKKENERIEK ERMRRLMAED EEGYRKLIDQ KKDKRLAYLL QQTD EYVAN LTELVRQHKA AQVAKEKKKK KKKKKAENAE GQTPAIGPDG EPLDETSQMS DLPVKVIHVE SGKILTGTDA PKAGQ LEAW LEMNPGYEVA PRSDSEESGS EEEEEEEEEE QPQAAQPPTL PVEEKKKIPD PDSDDVSEVD ARHIIENAKQ DVDDEY GVS QALARGLQSY YAVAHAVTER VDKQSALMVN GVLKQYQIKG LEWLVSLYNN NLNGILADEM GLGKTIQTIA LITYLME HK RINGPFLIIV PLSTLSNWAY EFDKWAPSVV KVSYKGSPAA RRAFVPQLRS GKFNVLLTTY EYIIKDKHIL AKIRWKYM I VDEGHRMKNH HCKLTQVLNT HYVAPRRLLL TGTPLQNKLP ELWALLNFLL PTIFKSCSTF EQWFNAPFAM TGEKVDLNE EETILIIRRL HKVLRPFLLR RLKKEVEAQL PEKVEYVIKC DMSALQRVLY RHMQAKGVLL TDGSEKDKKG KGGTKTLMNT IMQLRKICN HPYMFQHIEE SFSEHLGFTG GIVQGLDLYR ASGKFELLDR ILPKLRATNH KVLLFCQMTS LMTIMEDYFA Y RGFKYLRL DGTTKAEDRG MLLKTFNEPG SEYFIFLLST RAGGLGLNLQ SADTVIIFDS DWNPHQDLQA QDRAHRIGQQ NE VRVLRLC TVNSVEEKIL AAAKYKLNVD QKVIQAGMFD QKSSSHERRA FLQAILEHEE QDEEEDEVPD DETVNQMIAR HEE EFDLFM RMDLDRRREE ARNPKRKPRL MEEDELPSWI IKDDAEVERL TCEEEEEKMF GRGSRHRKEV DYSDSLTEKQ WLKA IEEGT LEEIEEEVRQ KKSSRKRKRD SDAGSSTPTT STRSRDKDDE SKKQKKRGRP PAEKLSPNPP NLTKKMKKIV DAVIK YKDS SSGRQLSEVF IQLPSRKELP EYYELIRKPV DFKKIKERIR NHKYRSLNDL EKDVMLLCQN AQTFNLEGSL IYEDSI VLQ SVFTSVRQKI EKEDDSEGEE SEEEEEGEEE GSESESRSVK VKIKLGRKEK AQDRLKGGRR RPSRGSRAKP VVSDDDS EE EQEEDRSGSG SEEDASGGSW SHPQFEKWSH PQFEKWSHPQ FEK

UniProtKB: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 4

Macromolecule #8: Actin-like protein 6A

• Macromolecule: Name: Actin-like protein 6A / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 47.509812 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MSGGVYGGDE VGALVFDIGS YTVRAGYAGE DCPKVDFPTA IGMVVERDDG STLMEIDGDK GKQGGPTYYI DTNALRVPRE NMEAISPLK NGMVEDWDSF QAILDHTYKM HVKSEASLHP VLMSEAPWNT RAKREKLTEL MFEHYNIPAF FLCKTAVLTA F ANGRSTGL ILDSGATHTT AIPVHDGYVL QQGIVKSPLA GDFITMQCRE LFQEMNIELV PPYMIASKEA VREGSPANWK RK EKLPQVT RSWHNYMCNC VIQDFQASVL QVSDSTYDEQ VAAQMPTVHY EFPNGYNCDF GAERLKIPEG LFDPSNVKGL SGN TMLGVS HVVTTSVGMC DIDIRPGLYG SVIVAGGNTL IQSFTDRLNR ELSQKTPPSM RLKLIANNTT VERRFSSWIG GSIL ASLGT FQQMWISKQE YEEGGKQCVE RKCP

UniProtKB: Actin-like protein 6A

Macromolecule #9: Actin, cytoplasmic 1

• Macromolecule: Name: Actin, cytoplasmic 1 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 41.78266 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MDDDIAALVV DNGSGMCKAG FAGDDAPRAV FPSIVGRPRH QGVMVGMGQK DSYVGDEAQS KRGILTLKYP IEHGIVTNWD DMEKIWHHT FYNELRVAPE EHPVLLTEAP LNPKANREKM TQIMFETFNT PAMYVAIQAV LSLYASGRTT GIVMDSGDGV T HTVPIYEG YALPHAILRL DLAGRDLTDY LMKILTERGY SFTTTAEREI VRDIKEKLCY VALDFEQEMA TAASSSSLEK SY ELPDGQV ITIGNERFRC PEALFQPSFL GMESCGIHET TFNSIMKCDV DIRKDLYANT VLSGGTTMYP GIADRMQKEI TAL APSTMK IKIIAPPERK YSVWIGGSIL ASLSTFQQMW ISKQEYDESG PSIVHRKCF

UniProtKB: Actin, cytoplasmic 1

Macromolecule #10: AT-rich interactive domain-containing protein 2,AT-rich interacti...

• Macromolecule: Name: AT-rich interactive domain-containing protein 2,AT-rich interactive domain-containing protein 2; type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 97.547102 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MANSTGKAPP DERRKGLAFL DELRQFHHSR GSPFKKIPAV GGKELDLHGL YTRVTTLGGF AKVSEKNQWG EIVEEFNFPR SCSNAAFAL KQYYLRYLEK YEKVHHFGED DDEVPPGNPK PQLPIGAIPS SYNYQQHSVS DYLRQSYGLS MDFNSPNDYN K LVLSLLSG LPNEVDFAIN VCTLLSNESK HVMQLEKDPK IITLLLANAG VFDDTLGSFS TVFGEEWKEK TDRDFVKFWK DI VDDNEVR DLISDRNKSH EGTSGEWIWE SLFHPPRKLG INDIEGQRVL QIAVILRNLS FEEGNVKLLA ANRTCLRFLL LSA HSHFIS LRQLGLDTLG NIAAELLLDP VDFKTTHLMF HTVTKCLMSR DRFLKMRGME ILGNLCKAED NGVLICEYVD QDSY REIIC HLTLPDVLLV ISTLEVLYML TEMGDVACTK IAKVEKSIDM LVCLVSMDIQ MFGPDALAAV KLIEHPSSSH QMLSE IRPQ AIEQVQTQTH VASAPASRAV VAQHVAPPPG IVEIDSEKFA CQWLNAHFEV NPDCSVSRAE MYSEYLSTCS KLARGG ILT STGFYKCLRT VFPNHTVKRV EDSSSNGQAH IHVVGVKRRA IPLPIQMYYQ QQPVSTSVVR VDSNTPMPPS PAVQVQG QP NSSQPSPFSG SSQPGDPMRK PGQNFMCLWQ SCKKWFQTPS QVFYHAATEH GGKDVYPGQC LWEGCEPFQR QRFSFITH L QDKHCSKDAL LAGLKQDEPG QAGSQKSSTK QPTVGGTSST PRAQKAIVNH PSAALMALRR GSRNLVFRDF TDEKEGPIT KHIRLTAALI LKNIGKYSEC GRRLLKRHEN NLSVLAISNM EASSTLAKCL YELNFTVQSK EQEKDSEMLQ

UniProtKB: AT-rich interactive domain-containing protein 2, AT-rich interactive domain-containing protein 2

Macromolecule #11: PHD finger protein 10

• Macromolecule: Name: PHD finger protein 10 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 58.254164 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MHHHHHHHHH HHHGEFMAAA AGPGAALSPR PCDSDPATPG AQSPKDDNED NSNDGTQPSK RRRMGSGDSS RSCETSSQDL GFSYYPAEN LIEYKWPPDE TGEYYMLQEQ VSEYLGVTSF KRKYPDLERR DLSHKEKLYL RELNVITETQ CTLGLTALRS D EVIDLMIK EYPAKHAEYS VILQEKERQR ITDHYKEYSQ MQQQNTQKVE ASKVPEYIKK AAKKAAEFNS NLNRERMEER RA YFDLQTH VIQVPQGKYK VLPTERTKVS SYPVALIPGQ FQEYYKRYSP DELRYLPLNT ALYEPPLDPE LPALDSDGDS DDG EDGRGD EKRKNKGTSD SSSGNVSEGE SPPDSQEDSF QGRQKSKDKA ATPRKDGPKR SVLSKSVPGY KPKVIPNAIC GICL KGKES NKKGKAESLI HCSQCENSGH PSCLDMTMEL VSMIKTYPWQ CMECKTCIIC GQPHHEEEMM FCDMCDRGYH TFCVG LGAI PSGRWICDCC QRAPPTPRKV GRRGKNSKEG

UniProtKB: PHD finger protein 10

Macromolecule #12: Isoform 2 of Bromodomain-containing protein 7

• Macromolecule: Name: Isoform 2 of Bromodomain-containing protein 7 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 74.385812 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MGKKHKKHKS DKHLYEEYVE KPLKLVLKVG GNEVTELSTG SSGHDSSLFE DKNDHDKHKD RKRKKRKKGE KQIPGEEKGR KRRRVKEDK KKRDRDRVEN EAEKDLQCHA PVRLDLPPEK PLTSSLAKQE EVEQTPLQEA LNQLMRQLQR KDPSAFFSFP V TDFIAPGY SMIIKHPMDF STMKEKIKNN DYQSIEELKD NFKLMCTNAM IYNKPETIYY KAAKKLLHSG MKILSQERIQ SL KQSIDFM ADLQKTRKQK DGTDTSQSGE DGGCWQRERE DSGDAEAHAF KSPSKENKKK DKDMLEDKFK SNNLEREQEQ LDR IVKESG GKLTRRLVNS QCEFERRKPD GTTTLGLLHP VDPIVGEPGY CPVRLGMTTG RLQSGVNTLQ GFKEDKRNKV TPVL YLNYG PYSSYAPHYD STFANISKDD SDLIYSTYGE DSDLPSDFSI HEFLATCQDY PYVMADSLLD VLTKGGHSRT LQEME MSLP EDEGHTRTLD TAKEMEQITE VEPPGRLDSS TQDRLIALKA VTNFGVPVEV FDSEEAEIFQ KKLDETTRLL RELQEA QNE RLSTRPPPNM ICLLGPSYRE MHLAEQVTNN LKELAQQVTP GDIVSTYGVR KAMGISIPSP VMENNFVDLT EDTEEPK KT DVAECGPGGS

UniProtKB: Bromodomain-containing protein 7

Macromolecule #13: unknown

• Macromolecule: Name: unknown / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: unidentified (others)
• Molecular weight: Theoretical: 613.749 Da
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)

Macromolecule #14: SWI/SNF-related matrix-associated actin-dependent regulator of ch...

• Macromolecule: Name: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1; type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 44.199188 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MMMMALSKTF GQKPVKFQLE DDGEFYMIGS EVGNYLRMFR GSLYKRYPSL WRRLATVEER KKIVASSHGK KTKPNTKDHG YTTLATSVT LLKASEVEEI LDGNDEKYKA VSISTEPPTY LREQKAKRNS QWVPTLPNSS HHLDAVPCST TINRNRMGRD K KRTFPLCF DDHDPAVIHE NASQPEVLVP IRLDMEIDGQ KLRDAFTWNM NEKLMTPEMF SEILCDDLDL NPLTFVPAIA SA IRQQIES YPTDSILEDQ SDQRVIIKLN IHVGNISLVD QFEWDMSEKE NSPEKFALKL CSELGLGGEF VTTIAYSIRG QLS WHQKTY AFSENPLPTV EIAIRNTGDA DQWCPLLETL TDAEMEKKIR DQDRNTRRMR RLANTAPAW

UniProtKB: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1

Macromolecule #15: SWI/SNF complex subunit SMARCC2

• Macromolecule: Name: SWI/SNF complex subunit SMARCC2 / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 133.048109 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MAVRKKDGGP NVKYYEAADT VTQFDNVRLW LGKNYKKYIQ AEPPTNKSLS SLVVQLLQFQ EEVFGKHVSN APLTKLPIKC FLDFKAGGS LCHILAAAYK FKSDQGWRRY DFQNPSRMDR NVEMFMTIEK SLVQNNCLSR PNIFLCPEIE PKLLGKLKDI I KRHQGTVT EDKNNASHVV YPVPGNLEEE EWVRPVMKRD KQVLLHWGYY PDSYDTWIPA SEIEASVEDA PTPEKPRKVH AK WILDTDT FNEWMNEEDY EVNDDKNPVS RRKKISAKTL TDEVNSPDSD RRDKKGGNYK KRKRSPSPSP TPEAKKKNAK KGP STPYTK SKRGHREEEQ EDLTKDMDEP SPVPNVEEVT LPKTVNTKKD SESAPVKGGT MTDLDEQEDE SMETTGKDED ENST GNKGE QTKNPDLHED NVTEQTHHII IPSYAAWFDY NSVHAIERRA LPEFFNGKNK SKTPEIYLAY RNFMIDTYRL NPQEY LTST ACRRNLAGDV CAIMRVHAFL EQWGLINYQV DAESRPTPMG PPPTSHFHVL ADTPSGLVPL QPKTPQQTSA SQQMLN FPD KGKEKPTDMQ NFGLRTDMYT KKNVPSKSKA AASATREWTE QETLLLLEAL EMYKDDWNKV SEHVGSRTQD ECILHFL RL PIEDPYLEDS EASLGPLAYQ PIPFSQSGNP VMSTVAFLAS VVDPRVASAA AKSALEEFSK MKEEVPTALV EAHVRKVE E AAKVTGKADP AFGLESSGIA GTTSDEPERI EESGNDEARV EGQATDEKKE PKEPREGGGA IEEEAKEKTS EAPKKDEEK GKEGDSEKES EKSDGDPIVD PEKEKEPKEG QEEVLKEVVE SEGERKTKVE RDIGEGNLST AAAAALAAAA VKAKHLAAVE ERKIKSLVA LLVETQMKKL EIKLRHFEEL ETIMDREREA LEYQRQQLLA DRQAFHMEQL KYAEMRARQQ HFQQMHQQQQ Q PPPALPPG SQPIPPTGAA GPPAVHGLAV APASVVPAPA GSGAPPGSLG PSEQIGQAGS TAGPQQQQPA GAPQPGAVPP GV PPPGPHG PSPFPNQQTP PSMMPGAVPG SGHPGVAGNA PLGLPFGMPP PPPPPAPSII PFGSLADSIS INLPAPPNLH GHH HHLPFA PGTLPPPNLP VSMANPLHPN LPATTTMPSS LPLGPGLGSA AAQSPAIVAA VQGNLLPSAS PLPDPGTPLP PDPT APSPG TVTPVPPPQ

UniProtKB: SWI/SNF complex subunit SMARCC2

Macromolecule #16: SWI/SNF-related matrix-associated actin-dependent regulator of ch...

• Macromolecule: Name: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1; type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 60.127332 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MAARAGFQSV APSGGAGASG GAGAAAALGP GGTPGPPVRM GPAPGQGLYR SPMPGAAYPR PGMLPGSRMT PQGPSMGPPG YGGNPSVRP GLAQSGMDQS RKRPAPQQIQ QVQQQAVQNR NHNAKKKKMA DKILPQRIRE LVPESQAYMD LLAFERKLDQ T IMRKRLDI QEALKRPIKQ KRKLRIFISN TFNPAKSDAE DGEGTVASWE LRVEGRLLED SALSKYDATK QKRKFSSFFK SL VIELDKD LYGPDNHLVE WHRTATTQET DGFQVKRPGD VNVRCTVLLM LDYQPPQFKL DPRLARLLGI HTQTRPVIIQ ALW QYIKTH KLQDPHEREF VICDKYLQQI FESQRMKFSE IPQRLHALLM PPEPIIINHV ISVDPNDQKK TACYDIDVEV DDTL KTQMN SFLLSTASQQ EIATLDNKIH ETIETINQLK TQREFMLSFA RDPQGFINDW LQSQCRDLKT MTDVVGNPEE ERRAE FYFQ PWAQEAVCRY FYSKVQQRRQ ELEQALGIRN TASHHHHHHH HHHHH

UniProtKB: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1

Macromolecule #17: SWI/SNF-related matrix-associated actin-dependent regulator of ch...

• Macromolecule: Name: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1; type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 46.710371 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MSKRPSYAPP PTPAPATQMP STPGFVGYNP YSHLAYNNYR LGGNPGTNSR VTASSGITIP KPPKPPDKPL MPYMRYSRKV WDQVKASNP DLKLWEIGKI IGGMWRDLTD EEKQEYLNEY EAEKIEYNES MKAYHNSPAY LAYINAKSRA EAALEEESRQ R QSRMEKGE PYMSIQPAED PDDYDDGFSM KHTATARFQR NHRLISEILS ESVVPDVRSV VTTARMQVLK RQVQSLMVHQ RK LEAELLQ IEERHQEKKR KFLESTDSFN NELKRLCGLK VEVDMEKIAA EIAQAEEQAR KRQEEREKEA AEQAERSQSS IVP EEEQAA NKGEEKKDDE NIPMETEETH LEETTESQQN GEEGTSTPED KESGQEGVDS MAEEGTSDSN TGSESNSATV EEPP TDPIP EDEKKE

UniProtKB: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1

Macromolecule #18: Protein polybromo-1

• Macromolecule: Name: Protein polybromo-1 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Homo sapiens (human)
• Molecular weight: Theoretical: 116.76243 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

MDDDMASPKL KLSRKSGISP KKSKYMTPMQ QKLNEVYEAV KNYTDKRGRR LSAIFLRLPS RSELPDYYLT IKKPMDMEKI RSHMMANKY QDIDSMVEDF VMMFNNACTY NEPESLIYKD ALVLHKVLLE TRRDLEGDED SHVPNVTLLI QELIHNLFVS V MSHQDDEG RCYSDSLAEI PAVDPNFPNK PPLTFDIIRK NVENNRYRRL DLFQEHMFEV LERARRMNRT DSEIYEDAVE LQ QFFIKIR DELCKNGEIL LSPALSYTTK HLHNDVEKER KEKLPKEIEE DKLKREEEKR EAEKSEDSSG AAGLSGLHRT YSQ DCSFKN SMYHVGDYVY VEPAEANLQP HIVCIERLWE DSAGEKWLYG CWFYRPNETF HLATRKFLEK EVFKSDYYNK VPVS KILGK CVVMFVKEYF KLCPENFRDE DVFVCESRYS AKTKSFKKIK LWTMPISSVR FVPRDVPLPV VRVASVFANA DKGDD EKNT DNSEDSRAED NFNLEKEKED VPVEMSNGEP GCHYFEQLHY NDMWLKVGDC VFIKSHGLVR PRVGRIEKVW VRDGAA YFY GPIFIHPEET EHEPTKMFYK KEVFLSNLEE TCPMTCILGK CAVLSFKDFL SCRPTEIPEN DILLCESRYN ESDKQMK KF KGLKRFSLSA KVVDDEIYYF RKPIVPQKEP SPLLEKKIQL LEAKFAELEG GDDDIEEMGE EDSEVIEPPS LPQLQTPL A SELDLMPYTP PQSTPKSAKG SAKKEGSKRK INMSGYILFS SEMRAVIKAQ HPDYSFGELS RLVGTEWRNL ETAKKAEYE ERAAKVAEQQ ERERAGMMGG YPPGLPPLQG PVDGLVSMGS MQPLHPGGPP PHHLPPGVPG LPGIPPPGVM NQGVAPMVGT PAPGGSPYG QQVGVLGPPG QQAPPPYPGP HPAGPPVIQQ PTTPMFVAPP PKTQRLLHSE AYLKYIEGLS AESNSISKWD Q TLAARRRD VHLSKEQESR LPSHWLKSKG AHTTMADALW RLRDLMLRDT LNIRQAYNLE NV

UniProtKB: Protein polybromo-1

Macromolecule #19: unknown

• Macromolecule: Name: unknown / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: unidentified (others)
• Molecular weight: Theoretical: 1.379692 KDa
• Recombinant expression: Organism: Homo sapiens (human)

Sequence

String:

(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)

Macromolecule #5: DNA (207-MER)

• Macromolecule: Name: DNA (207-MER) / type: dna / ID: 5 / Number of copies: 1 / Classification: DNA
• Source (natural): Organism: synthetic construct (others)
• Molecular weight: Theoretical: 63.679574 KDa

Sequence

String:

(DG)(DG)(DA)(DC)(DC)(DC)(DT)(DA)(DT)(DA) (DC)(DG)(DC)(DG)(DG)(DC)(DC)(DG)(DC)(DC) (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)(DA)(DA)(DG)(DC)(DT)(DT) (DG)(DT)(DC)(DG)(DA)(DG)(DA)(DA) (DG) (DT)(DA)(DC)(DT)(DA)(DG)(DA)(DG)(DG)(DA) (DT)(DC)(DA)(DT)(DA)(DA)(DT)(DC)(DA) (DG)(DC)(DC)(DA)(DT)(DA)(DC)

Macromolecule #6: DNA (207-MER)

• Macromolecule: Name: DNA (207-MER) / type: dna / ID: 6 / Number of copies: 1 / Classification: DNA
• Source (natural): Organism: synthetic construct (others)
• Molecular weight: Theoretical: 64.145816 KDa

Sequence

String:

(DG)(DT)(DA)(DT)(DG)(DG)(DC)(DT)(DG)(DA) (DT)(DT)(DA)(DT)(DG)(DA)(DT)(DC)(DC)(DT) (DC)(DT)(DA)(DG)(DT)(DA)(DC)(DT)(DT) (DC)(DT)(DC)(DG)(DA)(DC)(DA)(DA)(DG)(DC) (DT) (DT)(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)(DG)(DG)(DC)(DG) (DG)(DC)(DC)(DG)(DC)(DG)(DT)(DA)(DT) (DA)(DG)(DG)(DG)(DT)(DC)(DC)

Macromolecule #20: BERYLLIUM TRIFLUORIDE ION

• Macromolecule: Name: BERYLLIUM TRIFLUORIDE ION / type: ligand / ID: 20 / Number of copies: 1 / Formula: BEF
• Molecular weight: Theoretical: 66.007 Da

Chemical component information

ChemComp-BEF:
BERYLLIUM TRIFLUORIDE ION

Macromolecule #21: MAGNESIUM ION

• Macromolecule: Name: MAGNESIUM ION / type: ligand / ID: 21 / Number of copies: 1 / Formula: MG
• Molecular weight: Theoretical: 24.305 Da

Macromolecule #22: ADENOSINE-5'-DIPHOSPHATE

• Macromolecule: Name: ADENOSINE-5'-DIPHOSPHATE / type: ligand / ID: 22 / Number of copies: 1 / Formula: ADP
• Molecular weight: Theoretical: 427.201 Da

Chemical component information

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

Experimental details

Structure determination

• Method: cryo EM
• Processing: single particle reconstruction
• Aggregation state: particle

Sample preparation

• Buffer: pH: 7.5
• Vitrification: Cryogen name: ETHANE

Electron microscopy

• Microscope: FEI TITAN KRIOS
• Image recording: Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Ų
• Electron beam: Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
• Electron optics: Illumination mode: OTHER / Imaging mode: BRIGHT FIELD
• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company

Image processing

• CTF correction: Type: NONE
• Startup model: Type of model: OTHER
• Final reconstruction: Resolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 137659
• Initial angle assignment: Type: OTHER
• Final angle assignment: Type: OTHER