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

Function / homology

Function:

single stranded viral RNA replication via double stranded DNA intermediate / positive regulation of glucose mediated signaling pathway / positive regulation of pseudohyphal growth by positive regulation of transcription from RNA polymerase II promoter / positive regulation of norepinephrine uptake / regulation of DNA strand elongation / positive regulation of telomere maintenance in response to DNA damage / cellular response to cytochalasin B / blastocyst hatching / bBAF complex / npBAF complex / postsynaptic actin cytoskeleton organization / regulation of transepithelial transport / brahma complex / nBAF complex / structural constituent of postsynaptic actin cytoskeleton / positive regulation of transcription of nucleolar large rRNA by RNA polymerase I / negative regulation of androgen receptor signaling pathway / morphogenesis of a polarized epithelium / GBAF complex / neural retina development / postsynaptic actin cytoskeleton / protein localization to adherens junction / Formation of annular gap junctions / regulation of G0 to G1 transition / dense body / Gap junction degradation / Tat protein binding / XY body / Cell-extracellular matrix interactions / Folding of actin by CCT/TriC / EGR2 and SOX10-mediated initiation of Schwann cell myelination / regulation of double-strand break repair / coronary artery morphogenesis / nucleosome disassembly / Ino80 complex / regulation of nucleotide-excision repair / RSC-type complex / apical protein localization / hepatocyte differentiation / Prefoldin mediated transfer of substrate to CCT/TriC / blastocyst formation / adherens junction assembly / RHOF GTPase cycle / Adherens junctions interactions / RNA polymerase I preinitiation complex assembly / N-acetyltransferase activity / positive regulation by host of viral transcription / tight junction / Sensory processing of sound by outer hair cells of the cochlea / SWI/SNF complex / Interaction between L1 and Ankyrins / Sensory processing of sound by inner hair cells of the cochlea / ATP-dependent chromatin remodeler activity / regulation of mitotic metaphase/anaphase transition / regulation of norepinephrine uptake / positive regulation of double-strand break repair / germ cell nucleus / positive regulation of T cell differentiation / cardiac muscle cell proliferation / NuA4 histone acetyltransferase complex / regulation of synaptic vesicle endocytosis / cellular response to fatty acid / apical junction complex / nuclear androgen receptor binding / establishment or maintenance of cell polarity / regulation of chromosome organization / negative regulation of G1/S transition of mitotic cell cycle / maintenance of blood-brain barrier / nuclear chromosome / homeostatic process / spinal cord development / positive regulation of stem cell population maintenance / positive regulation of double-strand break repair via homologous recombination / cortical cytoskeleton / RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known / nitric-oxide synthase binding / Recycling pathway of L1 / regulation of cyclin-dependent protein serine/threonine kinase activity / regulation of G1/S transition of mitotic cell cycle / regulation of DNA replication / negative regulation of cell differentiation / brush border / regulation of embryonic development / calyx of Held / kinesin binding / positive regulation of Wnt signaling pathway / EPH-ephrin mediated repulsion of cells / nucleosomal DNA binding / RHO GTPases Activate WASPs and WAVEs / RHO GTPases activate IQGAPs / positive regulation of myoblast differentiation / embryonic organ development / ATP-dependent activity, acting on DNA / Chromatin modifying enzymes / regulation of DNA repair / regulation of protein localization to plasma membrane / DNA polymerase binding / heart morphogenesis / transcription initiation-coupled chromatin remodeling / Regulation of TP53 Activity through Acetylation

Domain/homology:

PHD finger protein 10 / SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 / : / RFX DNA-binding domain / SWIB domain / SWI complex, BAF60b domains / 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 / SWI/SNF complex subunit BRG1 / RFX-type winged-helix DNA-binding domain profile. / Chromatin-remodeling complex component Sfh1/SNF5 / Protein polybromo-1, Bromodomain 5 / SMARCC, C-terminal / SWIRM-associated region 1 / SNF5/SMARCB1/INI1 / SNF5 / SMARCB1 / INI1 / BRK domain / BRK domain / BRK domain superfamily / domain in transcription and CHROMO domain helicases / Remodelling complex subunit Rsc/polybromo / Protein of unknown function DUF3512 / Domain of unknown function (DUF3512) / domain in helicases and associated with SANT domains / Glutamine-Leucine-Glutamine, QLQ / QLQ / QLQ domain profile. / QLQ / Snf2, ATP coupling domain / Snf2-ATP coupling, chromatin remodelling complex / Snf2-ATP coupling, chromatin remodelling complex / HSA domain / Helicase/SANT-associated domain / HSA domain profile. / SWIRM domain / SWIRM domain / SWIRM domain profile. / 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 / Bromo adjacent homology (BAH) domain superfamily / Bromo adjacent homology domain / Bromo adjacent homology (BAH) domain / BAH domain / BAH domain profile. / SWIB/MDM2 domain / SWIB/MDM2 domain / SWIB/MDM2 domain profile. / SANT domain profile. / SWIB/MDM2 domain superfamily / SANT domain / : / HMG (high mobility group) box / Chromo/chromo shadow domain / Chromatin organization modifier domain / SNF2-like, N-terminal domain superfamily / SNF2, N-terminal / SNF2-related domain / HMG boxes A and B DNA-binding domains profile. / Myb-like DNA-binding domain / high mobility group / High mobility group box domain / High mobility group box domain superfamily / SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains / SANT/Myb domain / Actins signature 1. / Actin, conserved site / Actins signature 2. / Actin/actin-like conserved site / Actins and actin-related proteins signature. / Actin / Actin family / Actin / BRCT domain superfamily / PHD-finger / Zinc finger C2H2 type domain signature. / Zinc finger PHD-type signature. / Histone H2B signature. / Histone H2B / Histone H2B / Zinc finger C2H2-type / Histone H2A conserved site / Histone H2A signature. / Histone H2A, C-terminal domain / C-terminus of histone H2A / Histone H2A / Histone 2A / Histone H4, conserved site / Histone H4 signature. / Histone H4 / Histone H4 / CENP-T/Histone H4, histone fold

Component:

Histone H3 / Actin-like protein 6A / Histone H2B 1.1 / Transcription activator BRG1 / 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 / Yuan JJ

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	May 18, 2022	-
Current status	May 18, 2022	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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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 / Adenosine diphosphate

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

Image processing

• Initial angle assignment: Type: OTHER
• Final angle assignment: Type: OTHER
• Final reconstruction: Resolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 137659