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- EMDB-71489: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome -

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Basic information

Entry
Database: EMDB / ID: EMD-71489
TitleCore SWI/SNF of PIC-Med-SWI/SNF-Nucleosome
Map datasharpened map
Sample
  • Complex: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome
    • Protein or peptide: Transcription regulatory protein SNF12
    • Protein or peptide: SWI/SNF complex subunit SWI3
    • Protein or peptide: Transcription regulatory protein SNF6
    • Protein or peptide: SWI/SNF global transcription activator complex subunit SWP82
    • Protein or peptide: SWI/SNF chromatin-remodeling complex subunit SNF5
    • Protein or peptide: Unknown
    • Protein or peptide: Transcription regulatory protein SNF2
    • Protein or peptide: SWI/SNF chromatin-remodeling complex subunit SWI1
KeywordsSWI/SNF / PIC / TRANSCRIPTION
Function / homology
Function and homology information


carbon catabolite activation of transcription / positive regulation of cell adhesion involved in single-species biofilm formation / positive regulation of mating type switching / positive regulation of invasive growth in response to glucose limitation / HDACs deacetylate histones / aggrephagy / DNA strand invasion / rDNA binding / RSC-type complex / SUMOylation of chromatin organization proteins ...carbon catabolite activation of transcription / positive regulation of cell adhesion involved in single-species biofilm formation / positive regulation of mating type switching / positive regulation of invasive growth in response to glucose limitation / HDACs deacetylate histones / aggrephagy / DNA strand invasion / rDNA binding / RSC-type complex / SUMOylation of chromatin organization proteins / histone H3K14ac reader activity / SWI/SNF complex / ATP-dependent chromatin remodeler activity / double-strand break repair via break-induced replication / nuclear chromosome / positive regulation of transcription by RNA polymerase I / histone H4 reader activity / maturation of LSU-rRNA / histone reader activity / cellular response to amino acid starvation / transcription initiation-coupled chromatin remodeling / chromatin DNA binding / double-strand break repair via homologous recombination / nucleotide-excision repair / DNA-templated DNA replication / Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement / nucleosomal DNA binding / double-strand break repair / histone binding / RNA polymerase II-specific DNA-binding transcription factor binding / transcription cis-regulatory region binding / chromatin remodeling / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / chromatin / structural molecule activity / positive regulation of transcription by RNA polymerase II / ATP hydrolysis activity / DNA binding / ATP binding / nucleus / cytosol
Similarity search - Function
: / : / Chromatin-remodelling complex, RSC SWI/SNF subunit Rsc7/Swp82 / Chromatin remodelling complex Rsc7/Swp82 subunit / : / SWIFT domain / SMARCC, C-terminal / SWIRM-associated region 1 / SNF5/SMARCB1/INI1 / SNF5 / SMARCB1 / INI1 ...: / : / Chromatin-remodelling complex, RSC SWI/SNF subunit Rsc7/Swp82 / Chromatin remodelling complex Rsc7/Swp82 subunit / : / SWIFT domain / SMARCC, C-terminal / SWIRM-associated region 1 / SNF5/SMARCB1/INI1 / SNF5 / SMARCB1 / INI1 / 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 / DNA binding domain with preference for A/T rich regions / AT hook, DNA-binding motif / 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. / 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 / Homeobox-like domain superfamily / Helicase conserved C-terminal domain / Bromodomain, conserved site / Bromodomain signature. / Bromodomain / bromo domain / Bromodomain / Bromodomain (BrD) profile. / Bromodomain-like superfamily / helicase superfamily c-terminal domain / 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 / Winged helix-like DNA-binding domain superfamily / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
SWI/SNF chromatin-remodeling complex subunit SWI1 / SWI/SNF chromatin-remodeling complex subunit SNF5 / Transcription regulatory protein SNF6 / SWI/SNF chromatin-remodeling complex subunit SNF2 / SWI/SNF complex subunit SWI3 / SWI/SNF global transcription activator complex subunit SWP82 / Transcription regulatory protein SNF12
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.5 Å
AuthorsYang C / Nagai S / Chen D-H
Funding support United States, 1 items
OrganizationGrant numberCountry
Other private United States
CitationJournal: To Be Published
Title: Structure of Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome
Authors: Yang C / Nagai S / Chen D-H
History
DepositionJun 26, 2025-
Header (metadata) releaseOct 7, 2026-
Map releaseOct 7, 2026-
UpdateOct 7, 2026-
Current statusOct 7, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_71489.png

Downloads & links

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Map

FileDownload / File: emd_71489.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationsharpened map
Projections & slices

Image control

Size
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AxesZ (Sec.)Y (Row.)X (Col.)
1.4 Å/pix.
x 320 pix.
= 448. Å		1.4 Å/pix.
x 320 pix.
= 448. Å		1.4 Å/pix.
x 320 pix.
= 448. Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.4 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.402
Minimum - Maximum-1.8552835 - 3.271944
Average (Standard dev.)0.0014824712 (±0.07604975)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 448.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_71489_msk_1.map
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Additional map: unsharpened map

Fileemd_71489_additional_1.map
Annotationunsharpened map
Projections & Slices
AxesZYX

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Half map: #2

Fileemd_71489_half_map_1.map
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Half map: #1

Fileemd_71489_half_map_2.map
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Sample components

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Entire : Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome

EntireName: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome
Components
  • Complex: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome
    • Protein or peptide: Transcription regulatory protein SNF12
    • Protein or peptide: SWI/SNF complex subunit SWI3
    • Protein or peptide: Transcription regulatory protein SNF6
    • Protein or peptide: SWI/SNF global transcription activator complex subunit SWP82
    • Protein or peptide: SWI/SNF chromatin-remodeling complex subunit SNF5
    • Protein or peptide: Unknown
    • Protein or peptide: Transcription regulatory protein SNF2
    • Protein or peptide: SWI/SNF chromatin-remodeling complex subunit SWI1

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Supramolecule #1: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome

SupramoleculeName: Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 2 MDa

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Macromolecule #1: Transcription regulatory protein SNF12

MacromoleculeName: Transcription regulatory protein SNF12 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 63.947633 KDa
SequenceString: MSKVMKPSNG KGSRKSSKAA TPDTKNFFHA KKKDPVNQDK ANNASQITPT VPHSHPSDMV IPDHLAELIP ELYSFQQLVD SEKRLDHFI HLRNLHMKRM VAQWERSKLS QEFLYPHLNF PNVKFLRIFI SNVSENQPWQ MDTNNEADLM ALENATWTMR I EGRLLDNV ...String:
MSKVMKPSNG KGSRKSSKAA TPDTKNFFHA KKKDPVNQDK ANNASQITPT VPHSHPSDMV IPDHLAELIP ELYSFQQLVD SEKRLDHFI HLRNLHMKRM VAQWERSKLS QEFLYPHLNF PNVKFLRIFI SNVSENQPWQ MDTNNEADLM ALENATWTMR I EGRLLDNV QANDPAREKF SSFIESIVVD FKNKENDNVP STKFNAAPEE NATEGPSDKK LNLNLPLQFS LPNGDNSTTT NT DQNNATM GEETAKKDMS STTPKLESVK WQYDPNNPVD FDGLDIKRVG SENVECTISI LRKSSPEEPF MSYSPQLTAI IGL KSGTSH DAIFSIYKYI HLNELLTNDE SAFENLMGNR NNHNSNTSTS KMLDAASSQV SIVKLDTQLI TLLPSSLKES SPDT MKLTD LLSLINSTHL LPLQPIEIDY TVRVDKASTY GELVLDIEVP DVNALKFNNT QRESQIGAAE LNENARELEQ IKPKI ALQD KEITSVLSNL HESNKRYRFF KKISEDPVKA LNECIASTSN ALKVLSGDEG YNEDMVRRAN FYKENEAMLR ENIEVI LSN GRM

UniProtKB: Transcription regulatory protein SNF12

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Macromolecule #2: SWI/SNF complex subunit SWI3

MacromoleculeName: SWI/SNF complex subunit SWI3 / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 93.034164 KDa
SequenceString: MENTLGEGST VNASVDVDQH GNDNNSDSNA NAAVAGVANT DTAGEESQQQ DESLKDEATV PNTRDAESEA ITVTAKQQPT MQANKLDSQ ETPSTEESRA QNVFGQDNED SDNLFGETES SVSNNEANTP SIPTNPVDNE NNKPAIKEDS TIQDSNGDVK N MEDVKIQK ...String:
MENTLGEGST VNASVDVDQH GNDNNSDSNA NAAVAGVANT DTAGEESQQQ DESLKDEATV PNTRDAESEA ITVTAKQQPT MQANKLDSQ ETPSTEESRA QNVFGQDNED SDNLFGETES SVSNNEANTP SIPTNPVDNE NNKPAIKEDS TIQDSNGDVK N MEDVKIQK EEEPENNTVI EGVKEESQPD ENTKEMDEVE EDDEDDDQPM ISPDNSIFGD TKSESKQLGN TSSVANTPSE IP DAHKAEQ EDIIEKTESV DKKVDSGEER NEQEREIMND HSKSANPKKT TITRVEPETF EIPQAHEIVI PSYSKWFNLE KIH SIEVQS LPEFFTNRIP SKTPEVYMRY RNFMVNSYRL NPNEYFSVTT ARRNVSGDAA ALFRLHKFLT KWGLINYQVD SKLL PKNIE PPLTSQYSTR HDAPRGLFPF ESYKPSVQLP DMAKLKKMMN TSDSESTLYK YLKESKRKYD EITHPPSTTD DENGD KNDN GGKMNNEVST STSMTGDANL LEEGETSRPL KKVKILEQID ENWSKEDLQK LLKGIQEFGA DWYKVAKNVG NKSPEQ CIL RFLQLPIEDK FLYGDGNGKG DNDNGLGPLK YAPHLPFSKS ENPVLSTIAF LVGLVNPKTV QSMTQRAIQS AESIKSQ KE EISDQKPIEH IKEGSEIAIS SLGYRSHIFA TNEERQMNFL TNELIRLQME KLDAKLNHLK KLEKFMELER KTLERQQE N LLIQRLNFNQ NSSKIVNVLS KCLNLISDSN INNSSVAEKE EIRSQIDHFK SMLSKPETLS IGKNPFNKPN IETGENHNG QSISNENDVK PISIEAPQFY RYWSA

UniProtKB: SWI/SNF complex subunit SWI3

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Macromolecule #3: Transcription regulatory protein SNF6

MacromoleculeName: Transcription regulatory protein SNF6 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 37.652582 KDa
SequenceString: MGVIKKKRSH HGKASRQQYY SGVQVGGVGS MGAINNNIPS LTSFAEENNY QYGYSGSSAG MNGRSLTYAQ QQLNKQRQDF ERVRLRPEQ LSNIIHDESD TISFRSNLLK NFISSNDAFN MLSLTTVPCD RIEKSRLFSE KTIRYLMQKQ HEMKTQAAEL Q EKPLTPLK ...String:
MGVIKKKRSH HGKASRQQYY SGVQVGGVGS MGAINNNIPS LTSFAEENNY QYGYSGSSAG MNGRSLTYAQ QQLNKQRQDF ERVRLRPEQ LSNIIHDESD TISFRSNLLK NFISSNDAFN MLSLTTVPCD RIEKSRLFSE KTIRYLMQKQ HEMKTQAAEL Q EKPLTPLK YTKLIAAAED GSRSTKDMID AVFEQDSHLR YQPDGVVVHR DDPALVGKLR GDLREAPADY WTHAYRDVLA QY HEAKERI RQKEVTAGEA QDEASLQQQQ QQDLQQQQQV VTTVASQSPH ATATEKEPVP AVVDDPLENM FGDYSNEPFN TNF DDEFGD LDAVFF

UniProtKB: Transcription regulatory protein SNF6

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Macromolecule #4: SWI/SNF global transcription activator complex subunit SWP82

MacromoleculeName: SWI/SNF global transcription activator complex subunit SWP82
type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 70.366617 KDa
SequenceString: MLGEDEGNTV LEKGNNPSVK QGEVGAVFIV PKILIREHER VILKQILQIL DQDELVQPPL DKFPYKKLEL PKYIDELKTR DATNTSYKM IQLDAYGEKK VGSNGELFGG RHYLFNTFTF TAHMGVLLVL LQDVIKVLYQ SNATHDEDEF IVQHDQILVM E TSEEQTKF ...String:
MLGEDEGNTV LEKGNNPSVK QGEVGAVFIV PKILIREHER VILKQILQIL DQDELVQPPL DKFPYKKLEL PKYIDELKTR DATNTSYKM IQLDAYGEKK VGSNGELFGG RHYLFNTFTF TAHMGVLLVL LQDVIKVLYQ SNATHDEDEF IVQHDQILVM E TSEEQTKF LAKNGVIPEE SKGSFKYITA RSAFVEFGAS VIAGGQRIVD DYWESLAKKQ NLSSHQRVFK LSTNLISKIS LL RPSFQNN RISNANEISA NTNNTCTIST SKFESQYPIV TEQPSAEIRE AYIENFAKGE HISAIVPGQS ISGTLELSAQ FRV PRYHSK NSFQQALQMK AMDIPIGRHE ELLAQYESQA PDGSASISLP NHIPSVNPSN KPIKRMLSSI LDINVSSSKN KKSE ENEMI KPMNKGQHKN NTSLNINGWK FESLPLKSAE NSGKQQYYRG LPLYEKNTLL ERLKQLTPNE IKELEHLHDA VFVNT GLQN VRKVRTKKWK KYWQYKAGIP IGLKRSQLDE FKNKYLKDVL AQTSVTTNFN EITNTDETIT TKRVPNPNFL GNCNIK DFK PPYIYSHVNK VPQNVAGDKT AVKLDTEVKN TNANPVVATD PVAAKPDNLA NFSNEVAMNN

UniProtKB: SWI/SNF global transcription activator complex subunit SWP82

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Macromolecule #5: SWI/SNF chromatin-remodeling complex subunit SNF5

MacromoleculeName: SWI/SNF chromatin-remodeling complex subunit SNF5 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 102.642172 KDa
SequenceString: MNNQPQGTNS VPNSIGNIFS NIGTPSFNMA QIPQQLYQSL TPQQLQMIQQ RHQQLLRSRL QQQQQQQQQT SPPPQTHQSP PPPPQQSQP IANQSATSTP PPPPAPHNLH PQIGQVPLAP APINLPPQIA QLPLATQQQV LNKLRQQAIA KNNPQVVNAI T VAQQQVQR ...String:
MNNQPQGTNS VPNSIGNIFS NIGTPSFNMA QIPQQLYQSL TPQQLQMIQQ RHQQLLRSRL QQQQQQQQQT SPPPQTHQSP PPPPQQSQP IANQSATSTP PPPPAPHNLH PQIGQVPLAP APINLPPQIA QLPLATQQQV LNKLRQQAIA KNNPQVVNAI T VAQQQVQR QIEQQKGQQT AQTQLEQQRQ LLVQQQQQQQ LRNQIQRQQQ QQFRHHVQIQ QQQQKQQQQQ QQHQQQQQQQ QQ QQQQQQQ QQQQQQQQQQ QQQQQQQQQQ QGQIPQSQQV PQVRSMSGQP PTNVQPTIGQ LPQLPKLNLP KYQTIQYDPP ETK LPYPTY WSDKKADTDT LLYEQIIQRD KINKYSLIRE TNGYDPFSIY GFSNKEYISR LWHTLKYYQD LKNTRMKSIT STSQ KIPSA SIWGNGYSGY GNGITNTTTR VIPQVEVGNR KHYLEDKLKV YKQAMNETSE QLVPIRLEFD QDRDRFFLRD TLLWN KNDK LIKIEDFVDD MLRDYRFEDA TREQHIDTIC QSIQEQIQEF QGNPYIELNQ DRLGGDDLRI RIKLDIVVGQ NQLIDQ FEW DISNSDNCPE EFAESMCQEL ELPGEFVTAI AHSIREQVHM YHKSLALLGY NFDGSAIEDD DIRSRMLPTI TLDDVYR PA AESKIFTPNL LQISAAELER LDKDKDRDTR RKRRQGRSNR RGMLALSGTS ASNTSMNGVH NTVAAGNASS LPPGEILL P DIADIPRTFR TPVPSTLMPG GVDVGPSVES YELRNTTTYK SRPDRPKPVS PPCYIIDHIP GHSLLLSIKL PGKVNTKEE FAAAPNDTSS GTNAMLPSPE SLKTKLNSNI RAGVTIPSIP NPIANHTVTN SPNPTLQPVI PGGAASKSVP TPSLPIAPPV APHDSEATL LTNSNNGSSN NNTQNT

UniProtKB: SWI/SNF chromatin-remodeling complex subunit SNF5

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Macromolecule #6: Unknown

MacromoleculeName: Unknown / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 7.600243 KDa
SequenceString: (UNK)(UNK)(UNK)(UNK)(UNK)GR(UNK)(UNK)(UNK) (UNK)(UNK)P(UNK)(UNK)(UNK)(UNK)(UNK) (UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)V (UNK)(UNK)T(UNK)(UNK)VT(UNK)L (UNK)(UNK)(UNK)(UNK)(UNK) ...String:
(UNK)(UNK)(UNK)(UNK)(UNK)GR(UNK)(UNK)(UNK) (UNK)(UNK)P(UNK)(UNK)(UNK)(UNK)(UNK) (UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)V (UNK)(UNK)T(UNK)(UNK)VT(UNK)L (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)TR(UNK)Y LRFH(UNK)(UNK)(UNK)Y(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)

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Macromolecule #7: Transcription regulatory protein SNF2

MacromoleculeName: Transcription regulatory protein SNF2 / 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: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 194.315094 KDa
SequenceString: MNIPQRQFSN EEVNRCYLRW QHLRNEHGMN APSVPEFIYL TKVLQFAAKQ RQELQMQRQQ QGISGSQQNI VPNSSDQAEL PNNASSHIS ASASPHLAPN MQLNGNETFS TSAHQSPIMQ TQMPLNSNGG NNMLPQRQSS VGSLNATNFS PTPANNGENA A EKPDNSNH ...String:
MNIPQRQFSN EEVNRCYLRW QHLRNEHGMN APSVPEFIYL TKVLQFAAKQ RQELQMQRQQ QGISGSQQNI VPNSSDQAEL PNNASSHIS ASASPHLAPN MQLNGNETFS TSAHQSPIMQ TQMPLNSNGG NNMLPQRQSS VGSLNATNFS PTPANNGENA A EKPDNSNH NNLNLNNSEL QPQNRSLQEH NIQDSNVMPG SQINSPMPQQ AQMQQAQFQA QQAQQAQQAQ QAQQAQARLQ QG RRLPMTM FTAEQSELLK AQITSLKCLV NRKPIPFEFQ AVIQKSINHP PDFKRMLLSL SEFARRRQPT DQNNQSNLNG GNN TQQPGT NSHYNNTNTD NVSGLTRNAP LDSKDENFAS VSPAGPSSVH NAKNGTLDKN SQTVSGTPIT QTESKKEENE TISN VAKTA PNSNKTHTEQ NNPPKPQKPV PLNVLQDQYK EGIKVVDIDD PDMMVDSFTM PNISHSNIDY QTLLANSDHA KFTIE PGVL PVGIDTHTAT DIYQTLIALN LDTTVNDCLD KLLNDECTES TRENALYDYY ALQLLPLQKA VRGHVLQFEW HQNSLL TNT HPNFLSKIRN INVQDALLTN QLYKNHELLK LERKKTEAVA RLKSMNKSAI NQYNRRQDKK NKRLKFGHRL IATHTNL ER DEQKRAEKKA KERLQALKAN DEEAYIKLLD QTKDTRITHL LRQTNAFLDS LTRAVKDQQK YTKEMIDSHI KEASEEVD D LSMVPKMKDE EYDDDDDNSN VDYYNVAHRI KEDIKKQPSI LVGGTLKDYQ IKGLQWMVSL FNNHLNGILA DEMGLGKTI QTISLLTYLY EMKNIRGPYL VIVPLSTLSN WSSEFAKWAP TLRTISFKGS PNERKAKQAK IRAGEFDVVL TTFEYIIKER ALLSKVKWV HMIIDEGHRM KNAQSKLSLT LNTHYHADYR LILTGTPLQN NLPELWALLN FVLPKIFNSV KSFDEWFNTP F ANTGGQDK IELSEEETLL VIRRLHKVLR PFLLRRLKKD VEKELPDKVE KVVKCKMSAL QQIMYQQMLK YRRLFIGDQN NK KMVGLRG FNNQIMQLKK ICNHPFVFEE VEDQINPTRE TNDDIWRVAG KFELLDRILP KLKATGHRVL IFFQMTQIMD IME DFLRYI NIKYLRLDGH TKSDERSELL RLFNAPDSEY LCFILSTRAG GLGLNLQTAD TVIIFDTDWN PHQDLQAQDR AHRI GQKNE VRILRLITTN SVEEVILERA YKKLDIDGKV IQAGKFDNKS TSEEQEALLR SLLDAEEERR KKRESGVEEE EELKD SEIN EILARNDEEM AVLTRMDEDR SKKEEELGVK SRLLEKSELP DIYSRDIGAE LKREESESAA VYNGRGARER KTATYN DNM SEEQWLRQFE VSDDEKNDKQ ARKQRTKKED KSEAIDGNGE IKGENIDADN DGPRINNISA EDRADTDLAM NDDDFLS KK RKAGRPRGRP KKVKLEGSEN SEPPALESSP VTGDNSPSED FMDIPKPRTA GKTSVKSART STRGRGRGRG RGRGRGRG R GRPPKARNGL DYVRTPAAAT SPIDIREKVA KQALDLYHFA LNYENEAGRK LSDIFLSKPS KALYPDYYMI IKYPVAFDN INTHIETLAY NSLKETLQDF HLIFSNARIY NTEGSVVYED SLELEKVVTK KYCEIMGDNS QLDFTEFDEQ YGTRPLVLPP VVTSSVAES FTDEADSSMT EASV

UniProtKB: SWI/SNF chromatin-remodeling complex subunit SNF2

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Macromolecule #8: SWI/SNF chromatin-remodeling complex subunit SWI1

MacromoleculeName: SWI/SNF chromatin-remodeling complex subunit SWI1 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 148.065188 KDa
SequenceString: MDFFNLNNNN NNNNTTTTTT TTNNNNTNNN NTNNNNNPAN NTNNNNSTGH SSNTNNNTNN NNTNTGASGV DDFQNFFDPK PFDQNLDSN NNNSNSNNND NNNSNTVASS TNFTSPTAVV NNAAPANVTG GKAANFIQNQ SPQFNSPYDS NNSNTNLNSL S PQAILAKN ...String:
MDFFNLNNNN NNNNTTTTTT TTNNNNTNNN NTNNNNNPAN NTNNNNSTGH SSNTNNNTNN NNTNTGASGV DDFQNFFDPK PFDQNLDSN NNNSNSNNND NNNSNTVASS TNFTSPTAVV NNAAPANVTG GKAANFIQNQ SPQFNSPYDS NNSNTNLNSL S PQAILAKN SIIDSSNLPL QAQQQLYGGN NNNNSTGIAN DNVITPHFIT NVQSISQNSS SSTPNTNSNS TPNANQQFLP FN NSASNNG NLTSNQLISN YAASNSMDRS SSASNEFVPN TSDNNNNSNN HNMRNNSNNK TSNNNNVTAV PAATPANTNN STS NANTVF SERAAMFAAL QQKQQQRFQA LQQQQQQQQN QQQQNQQPQQ QQQQQQNPKF LQSQRQQQQR SILQSLNPAL QEKI STELN NKQYELFMKS LIENCKKRNM PLQSIPEIGN RKINLFYLYM LVQKFGGADQ VTRTQQWSMV AQRLQISDYQ QLESI YFRI LLPYERHMIS QEGIKETQAK RIFLQQFLQE LLKKVQQQQQ AAALANANNN INSASSAPTP AAPGASVPAT AAPGTE AGI VPVSANTPKS LNSNININVN NNNIGQQQVK KPRKQRVKKK TKKELELERK EREDFQKRQQ KLLEDQQRQQ KLLLETK LR QQYEIELKKL PKVYKRSIVR NYKPLINRLK HYNGYDINYI SKIGEKIDSN KPIFLFAPEL GAINLHALSM SLQSKNLG E INTALNTLLV TSADSNLKIS LVKYPELLDS LAILGMNLLS NLSQNVVPYH RNTSDYYYED AGSNQYYVTQ HDKMVDKIF EKVNNNATLT PNDSNDEKVT ILVDSLTGNQ LPTPTPTEME PDLDTECFIS MQSTSPAVKQ WDLLPEPIRF LPNQFPLKIH RTPYLTSLK KIKDEIDDPF TKINTRGAED PKVLINDQLS TISMILRNIS FSDNNSRIMS RNFYLKRFIS DLLWLVLIHP E NFTCNRKI LNFKKDLVIV LSNISHLLEI ASSIDCLLIL ILVISFGQPK LNPMASSSSF GSESLTFNEF QLQWGKYQTF GV DILAKLF SLEKPNLNYF KSILLNKNTG NNLYDRNSNN NHKDKKLLRR LLNLYNDNNK NNNNRHNLLN DVVSFLFSAI PLQ QVLSQS ADPSLLIDQF SPVISQSLTS ILVIVQKILP LSNEVFEISE NNSDSNSNNN GNKDSSFNFN KNLPFVWLSS EENI GSGLL KLSEIILNIN NSTSKNTLLQ QQNYSKVLLP SINISCVQLI KCLVEKSICF ENCLNNDPEI LKKIASIPNL FPTDL EIFQ LFTNPSVDIQ IINQYQLLYN LKNDILTNLE

UniProtKB: SWI/SNF chromatin-remodeling complex subunit SWI1

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
Details: 40 mM Hepes-KOH pH 7.5, 100 mM potassium acetate, 2 mM magnesium acetate and 5 mM DTT
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsEnergy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV
SoftwareName: SerialEM
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average exposure time: 4.0 sec. / Average electron dose: 40.8 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 64000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: OTHER
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.5 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 121711
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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Atomic model buiding 1

Initial model
PDB IDChain

7egp

source_name: PDB, initial_model_type: experimental model

7c4j

source_name: PDB, initial_model_type: experimental model
RefinementProtocol: RIGID BODY FIT
Output model

PDB-9pbs:
Core SWI/SNF of PIC-Med-SWI/SNF-Nucleosome

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