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- EMDB-45388: Cryo-EM structure of the reconstituted RuvBL lobe of the human TI... -

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Basic information

Entry
Database: EMDB / ID: EMD-45388
TitleCryo-EM structure of the reconstituted RuvBL lobe of the human TIP60 complex (composite structure)
Map data
Sample
  • Complex: Reconstituted RUVBL lobe of the TIP60 complex
    • Protein or peptide: E1A-binding protein p400,E1A-binding protein p400/Haloalkane dehalogenase chimera
    • Protein or peptide: Vacuolar protein sorting-associated protein 72 homolog
    • Protein or peptide: Enhancer of polycomb homolog 1
    • Protein or peptide: RuvB-like 1
    • Protein or peptide: RuvB-like 2,RuvB-like 2/Maltose/maltodextrin-binding periplasmic protein chimera
    • Protein or peptide: Actin, cytoplasmic 1
    • Protein or peptide: Actin-like protein 6A
    • Protein or peptide: DNA methyltransferase 1-associated protein 1
  • Ligand: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
  • Ligand: MAGNESIUM ION
Keywordshistone acetyltransferase / chromatin regulator / transcription regulation / GENE REGULATION
Function / homology
Function and homology information


piccolo histone acetyltransferase complex / promoter-enhancer loop anchoring activity / telomerase RNA localization to Cajal body / regulation of DNA strand elongation / positive regulation of telomere maintenance in response to DNA damage / sperm DNA condensation / positive regulation of norepinephrine uptake / histone chaperone activity / establishment of protein localization to chromatin / R2TP complex ...piccolo histone acetyltransferase complex / promoter-enhancer loop anchoring activity / telomerase RNA localization to Cajal body / regulation of DNA strand elongation / positive regulation of telomere maintenance in response to DNA damage / sperm DNA condensation / positive regulation of norepinephrine uptake / histone chaperone activity / establishment of protein localization to chromatin / R2TP complex / dynein axonemal particle / cellular response to cytochalasin B / bBAF complex / neural retina development / npBAF complex / nBAF complex / brahma complex / regulation of transepithelial transport / Swr1 complex / Formation of annular gap junctions / morphogenesis of a polarized epithelium / Formation of the dystrophin-glycoprotein complex (DGC) / structural constituent of postsynaptic actin cytoskeleton / RPAP3/R2TP/prefoldin-like complex / Gap junction degradation / GBAF complex / Folding of actin by CCT/TriC / protein localization to adherens junction / regulation of G0 to G1 transition / Cell-extracellular matrix interactions / dense body / protein antigen binding / Tat protein binding / postsynaptic actin cytoskeleton / Ino80 complex / chromatin-protein adaptor activity / Prefoldin mediated transfer of substrate to CCT/TriC / blastocyst formation / RSC-type complex / regulation of double-strand break repair / regulation of nucleotide-excision repair / Adherens junctions interactions / RHOF GTPase cycle / adherens junction assembly / apical protein localization / box C/D snoRNP assembly / protein folding chaperone complex / Sensory processing of sound by outer hair cells of the cochlea / Interaction between L1 and Ankyrins / tight junction / SWI/SNF complex / regulation of mitotic metaphase/anaphase transition / Sensory processing of sound by inner hair cells of the cochlea / positive regulation of T cell differentiation / Formation of Senescence-Associated Heterochromatin Foci (SAHF) / apical junction complex / positive regulation of double-strand break repair / spinal cord development / regulation of norepinephrine uptake / negative regulation of gene expression, epigenetic / maintenance of blood-brain barrier / transporter regulator activity / regulation of chromosome organization / nitric-oxide synthase binding / cortical cytoskeleton / NuA4 histone acetyltransferase complex / Transcriptional Regulation by E2F6 / RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known / establishment or maintenance of cell polarity / positive regulation of stem cell population maintenance / Regulation of MITF-M-dependent genes involved in pigmentation / Recycling pathway of L1 / TFIID-class transcription factor complex binding / regulation of DNA replication / brush border / regulation of G1/S transition of mitotic cell cycle / MLL1 complex / regulation of embryonic development / Telomere Extension By Telomerase / EPH-ephrin mediated repulsion of cells / somatic stem cell population maintenance / negative regulation of cell differentiation / spermatid development / kinesin binding / RHO GTPases Activate WASPs and WAVEs / regulation of synaptic vesicle endocytosis / enzyme-substrate adaptor activity / positive regulation of myoblast differentiation / RHO GTPases activate IQGAPs / RNA polymerase II core promoter sequence-specific DNA binding / regulation of DNA repair / regulation of protein localization to plasma membrane / positive regulation of double-strand break repair via homologous recombination / EPHB-mediated forward signaling / cytoskeleton organization / Deposition of new CENPA-containing nucleosomes at the centromere / substantia nigra development / telomere maintenance / DNA helicase activity / transcription initiation-coupled chromatin remodeling
Similarity search - Function
Enhancer of polycomb, C-terminal / Enhancer of Polycomb C-terminus / DNA methyltransferase 1-associated 1 / DNA methyltransferase 1-associated protein 1 (DMAP1) / E1A-binding protein p400, N-terminal / E1A-binding protein p400, N-terminal / SWR1-complex protein 4/DNA methyltransferase 1-associated protein 1 / DAMP1, SANT/Myb-like domain / SANT/Myb-like domain of DAMP1 / Enhancer of polycomb protein ...Enhancer of polycomb, C-terminal / Enhancer of Polycomb C-terminus / DNA methyltransferase 1-associated 1 / DNA methyltransferase 1-associated protein 1 (DMAP1) / E1A-binding protein p400, N-terminal / E1A-binding protein p400, N-terminal / SWR1-complex protein 4/DNA methyltransferase 1-associated protein 1 / DAMP1, SANT/Myb-like domain / SANT/Myb-like domain of DAMP1 / Enhancer of polycomb protein / Vps72/YL1, N-terminal / YL1 nuclear protein / Vps72/YL1, C-terminal / YL1 nuclear protein C-terminal domain / YL1 nuclear protein C-terminal domain / Myb-like domain profile. / domain in helicases and associated with SANT domains / RuvB-like / RuvB-like, AAA-lid domain / RuvBL1/2, DNA/RNA binding domain / TIP49 P-loop domain / TIP49 AAA-lid domain / TIP49, P-loop domain / HSA domain / Helicase/SANT-associated domain / HSA domain profile. / Enhancer of polycomb-like, N-terminal / Enhancer of polycomb-like / : / SNF2-like, N-terminal domain superfamily / SNF2, N-terminal / SNF2-related domain / 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 / Helicase conserved C-terminal domain / ATPase, nucleotide binding domain / 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 / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
Actin-like protein 6A / Actin, cytoplasmic 1 / Vacuolar protein sorting-associated protein 72 homolog / E1A-binding protein p400 / Enhancer of polycomb homolog 1 / DNA methyltransferase 1-associated protein 1 / RuvB-like 2 / RuvB-like 1
Similarity search - Component
Biological speciesHomo sapiens (human) / Rhodococcus rhodochrous (bacteria) / Escherichia coli K-12 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.07 Å
AuthorsLouder RK / Park G / Patel AB
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) United States
CitationJournal: To Be Published
Title: Structural divergence of H2A.Z-associated human chromatin remodelers SRCAP and TIP60
Authors: Park G / Patel AB / Wu C / Louder RK
History
DepositionJun 17, 2024-
Header (metadata) releaseJun 18, 2025-
Map releaseJun 18, 2025-
UpdateJun 18, 2025-
Current statusJun 18, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_45388.png

Downloads & links

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Map

FileDownload / File: emd_45388.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.73 Å/pix.
x 480 pix.
= 348.48 Å		0.73 Å/pix.
x 480 pix.
= 348.48 Å		0.73 Å/pix.
x 480 pix.
= 348.48 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.726 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.111586526 - 2.3134916
Average (Standard dev.)0.0012211315 (±0.022764562)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 348.48 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Reconstituted RUVBL lobe of the TIP60 complex

EntireName: Reconstituted RUVBL lobe of the TIP60 complex
Components
  • Complex: Reconstituted RUVBL lobe of the TIP60 complex
    • Protein or peptide: E1A-binding protein p400,E1A-binding protein p400/Haloalkane dehalogenase chimera
    • Protein or peptide: Vacuolar protein sorting-associated protein 72 homolog
    • Protein or peptide: Enhancer of polycomb homolog 1
    • Protein or peptide: RuvB-like 1
    • Protein or peptide: RuvB-like 2,RuvB-like 2/Maltose/maltodextrin-binding periplasmic protein chimera
    • Protein or peptide: Actin, cytoplasmic 1
    • Protein or peptide: Actin-like protein 6A
    • Protein or peptide: DNA methyltransferase 1-associated protein 1
  • Ligand: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
  • Ligand: MAGNESIUM ION

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Supramolecule #1: Reconstituted RUVBL lobe of the TIP60 complex

SupramoleculeName: Reconstituted RUVBL lobe of the TIP60 complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#8
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 700 KDa

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Macromolecule #1: E1A-binding protein p400,E1A-binding protein p400/Haloalkane deha...

MacromoleculeName: E1A-binding protein p400,E1A-binding protein p400/Haloalkane dehalogenase chimera
type: protein_or_peptide / ID: 1 / 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: Rhodococcus rhodochrous (bacteria)
Molecular weightTheoretical: 312.752844 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MALHVPTPGK VQVQASQLSS LPQMVASTRL PVDPAPPCPR PLPTSSTSSL APVSGSGPGP SPARSSPVNR PSSATNKALS PVTSRTPGV VASAPTKPQS PAQNATSSQD SSQDTLTEQI TLENQVHQRI AELRKAGLWS QRRLPKLQEA PRPKSHWDYL L EEMQWMAT ...String:
MALHVPTPGK VQVQASQLSS LPQMVASTRL PVDPAPPCPR PLPTSSTSSL APVSGSGPGP SPARSSPVNR PSSATNKALS PVTSRTPGV VASAPTKPQS PAQNATSSQD SSQDTLTEQI TLENQVHQRI AELRKAGLWS QRRLPKLQEA PRPKSHWDYL L EEMQWMAT DFAQERRWKV AAAKKLVRTV VRHHEEKQLR EERGKKEEQS RLRRIAASTA REIECFWSNI EQVVEIKLRV EL EEKRKKA LNLQKVSRRG KELRPKGFDA LQESSLDSGM SGRKRKASIS LTDDEVDDEE ETIEEEEANE GVVDHQTELS NLA KEAELP LLDLMKLYEG AFLPSSQWPR PKPDGEDTSG EEDADDCPGD RESRKDLVLI DSLFIMDQFK AAERMNIGKP NAKD IADVT AVAEAILPKG SARVTTSVKF NAPSLLYGAL RDYQKIGLDW LAKLYRKNLN GILADEAGLG KTVQIIAFFA HLACN EGNW GPHLVVVRSC NILKWELELK RWCPGLKILS YIGSHRELKA KRQEWAEPNS FHVCITSYTQ FFRGLTAFTR VRWKCL VID EMQRVKGMTE RHWEAVFTLQ SQQRLLLIDS PLHNTFLELW TMVHFLVPGI SRPYLSSPLR APSEESQDYY HKVVIRL HR VTQPFILRRT KRDVEKQLTK KYEHVLKCRL SNRQKALYED VILQPGTQEA LKSGHFVNVL SILVRLQRIC NHPGLVEP R HPGSSYVAGP LEYPSASLIL KALERDFWKE ADLSMFDLIG LENKITRHEA ELLSKKKIPR KLMEEISTSA APAARPAAA KLKASRLFQP VQYGQKPEGR TVAFPSTHPP RTAAPTTASA APQGPLRGRP PIATFSANPE AKAAAAPFQT SQASASAPRH QPASASSTA ASPAHPAKLR AQTTAQASTP GQPPPQPQAP SHAAGQSALP QRLVLPSQAQ ARLPSGEVVK IAQLASITGP Q SRVAQPET PVTLQFQGSK FTLSHSQLRQ LTAGQPLQLQ GSVLQIVSAP GQPYLRAPGP VVMQTVSQAG AVHGALGSKP PA GGPSPAP LTPQVGVPGR VAVNALAVGE PGTASKPASP IGGPTQEEKT RLLKERLDQI YLVNERRCSQ APVYGRDLLR ICA LPSHGR VQWRGSLDGR RGKEAGPAHS YTSSSESPSE LMLTLCRCGE SLQDVIDRVA FVIPPVVAAP PSLRVPRPPP LYSH RMRIL RQGLREHAAP YFQQLRQTTA PRLLQFPELR LVQFDSGKLE ALAILLQKLK SEGRRVLILS QMILMLDILE MFLNF HYLT YVRIDENASS EQRQELMRSF NRDRRIFCAI LSTHSRTTGI NLVEADTVVF YDNDLNPVMD AKAQEWCDRI GRCKDI HIY RLVSGNSIEE KLLKNGTKDL IREVAAQGND YSMAFLTQRT IQELFEVYSP MDDAGFPVKA EEFVVLSQEP SVTETIA PK IARPFIEALK SIEYLEEDAQ KSAQEGVLGP HTDALSSDSE NMPCDEEPSQ LEELADFMEQ LTPIEKYALN YLELFHTS I EQEKERNSED AVMTAVRAWE FWNLKTLQER EARLRLEQEE AELLTYTRED AYSMEYVYED VDGQTEVMPL WTPPTPPQD DSDIYLDSVM CLMYEATPIP EAKLPPVYVR KERKRHKTDP SAAGRKKKQR HGEAVVPPRS LFDRATPGLL KIRREGKEQK KNILLKQQV PFAKPLPTFA KPTAEPGQDN PEWLISEDWA LLQAVKQLLE LPLNLTIVSP AHTPNWDLVS DVVNSCSRIY R SSKQCRNR YENVIIPREE GKSKNNRPLR TSQIYAQDEN ATHTQLYTSH FDLMKMTAGK RSPPIKPLLG MNPFQKNPKH AS VLAESGI NYDKPLPPIQ VASLRAERIA KEKKALADQQ KAQQPAVAQP PPPQPQPPPP PQQPPPPLPQ PQAAGSQPPA GPP AVQPQP QPQPQTQPQP VQAPAKAQPA ITTGGSAAVL AGTIKTSVTG TSMPTGAVSG NVIVNTIAGV PAATFQSINK RLAS PVAPG ALTTPGGSAP AQVVHTQPPP RAVGSPATAT PDLVSMATTQ GVRAVTSVTA SAVVTTNLTP VQTPARSLVP QVSQA TGVQ LPGKTITPAH FQLLRQQQQQ QQQQQQQQQQ QQQQQQQQQQ QQQQTTTTSQ VQVPQIQGQA QSPAQIKAVG KLTPEH LIK MQKQKLQMPP QPPPPQAQSA PPQPAAQVQV QTSQPPQQQS PQLTTVTAPR PGALLTGTTV ANLQVARLTR VPTSQLQ AQ GQMQTQAPQP AQVALAKPPV VSVPAAVVSS PGVTTLPMNV AGISVAIGQP QKAAGQTVVA QPVHMQQLLK LKQQAVQQ Q KAIQPQAAQG PAAVQQKITA QQITTPGAQQ KVAYAAQPAL KTQFLTTPIS QAQKLAGAQQ VQTQIQVAKL PQVVQQQTP VASIQQVASA SQQASPQTVA LTQATAAGQQ VQMIPAVTAT AQVVQQKLIQ QQVVTTASAP LQTPGAPNPA QVPASSDSPS QQPKLQMRV PAVRLKTPTK PPCQGSGGSG EDLYFQSGGS MAEIGTGFPF DPHYVEVLGE RMHYVDVGPR DGTPVLFLHG N PTSSYVWR NIIPHVAPTH RCIAPDLIGM GKSDKPDLGY FFDDHVRFMD AFIEALGLEE VVLVIHDWGS ALGFHWAKRN PE RVKGIAF MEFIRPIPTW DEWPEFARET FQAFRTTDVG RKLIIDQNVF IEGTLPMGVV RPLTEVEMDH YREPFLNPVD REP LWRFPN ELPIAGEPAN IVALVEEYMD WLHQSPVPKL LFWGTPGVLI PPAEAARLAK SLPNCKAVDI GPGLNLLQED NPDL IGSEI ARWLSTLEIS GDYKDHDGDY KDHDIDYKDD DDKGSG

UniProtKB: E1A-binding protein p400

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Macromolecule #2: Vacuolar protein sorting-associated protein 72 homolog

MacromoleculeName: Vacuolar protein sorting-associated protein 72 homolog
type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 40.658363 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSLAGGRAPR KTAGNRLSGL LEAEEEDEFY QTTYGGFTEE SGDDEYQGDQ SDTEDEVDSD FDIDEGDEPS SDGEAEEPRR KRRVVTKAY KEPLKSLRPR KVNTPAGSSQ KAREEKALLP LELQDDGSDS RKSMRQSTAE HTRQTFLRVQ ERQGQSRRRK G PHCERPLT ...String:
MSLAGGRAPR KTAGNRLSGL LEAEEEDEFY QTTYGGFTEE SGDDEYQGDQ SDTEDEVDSD FDIDEGDEPS SDGEAEEPRR KRRVVTKAY KEPLKSLRPR KVNTPAGSSQ KAREEKALLP LELQDDGSDS RKSMRQSTAE HTRQTFLRVQ ERQGQSRRRK G PHCERPLT QEELLREAKI TEELNLRSLE TYERLEADKK KQVHKKRKCP GPIITYHSVT VPLVGEPGPK EENVDIEGLD PA PSVSALT PHAGTGPVNP PARCSRTFIT FSDDATFEEW FPQGRPPKVP VREVCPVTHR PALYRDPVTD IPYATARAFK IIR EAYKKY ITAHGLPPTA SALGPGPPPP EPLPGSGPRA LRQKIVIK

UniProtKB: Vacuolar protein sorting-associated protein 72 homolog

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Macromolecule #3: Enhancer of polycomb homolog 1

MacromoleculeName: Enhancer of polycomb homolog 1 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 29.563396 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAALPVFNAK DLNQYDFPSS DEEPLSQVLS GSSEAEEDND PDGPFAFRRK AGCQYYAPHL DQTGNWPWTS PKDGGLGDVR YRYCLTTLT VPQRCIGFAR RRVGRGGRVL LDRAHSDYDS VFHHLDLEML SSPQHSPVNQ FANTSETNTS DKSFSKDLSQ I LVNIKSCR ...String:
MAALPVFNAK DLNQYDFPSS DEEPLSQVLS GSSEAEEDND PDGPFAFRRK AGCQYYAPHL DQTGNWPWTS PKDGGLGDVR YRYCLTTLT VPQRCIGFAR RRVGRGGRVL LDRAHSDYDS VFHHLDLEML SSPQHSPVNQ FANTSETNTS DKSFSKDLSQ I LVNIKSCR WRHFRPRTPS LHDSDNDELS CRKLYRSINR TGTAQPGTQT CSTSTQSKSS SGSAHFAFTA EQYQQHQQQL AL MQKQQLA QIQQQQANSN SSTNTS

UniProtKB: Enhancer of polycomb homolog 1

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Macromolecule #4: RuvB-like 1

MacromoleculeName: RuvB-like 1 / type: protein_or_peptide / ID: 4 / Number of copies: 3 / Enantiomer: LEVO / EC number: DNA helicase
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 50.296914 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MKIEEVKSTT KTQRIASHSH VKGLGLDESG LAKQAASGLV GQENAREACG VIVELIKSKK MAGRAVLLAG PPGTGKTALA LAIAQELGS KVPFCPMVGS EVYSTEIKKT EVLMENFRRA IGLRIKETKE VYEGEVTELT PCETENPMGG YGKTISHVII G LKTAKGTK ...String:
MKIEEVKSTT KTQRIASHSH VKGLGLDESG LAKQAASGLV GQENAREACG VIVELIKSKK MAGRAVLLAG PPGTGKTALA LAIAQELGS KVPFCPMVGS EVYSTEIKKT EVLMENFRRA IGLRIKETKE VYEGEVTELT PCETENPMGG YGKTISHVII G LKTAKGTK QLKLDPSIFE SLQKERVEAG DVIYIEANSG AVKRQGRCDT YATEFDLEAE EYVPLPKGDV HKKKEIIQDV TL HDLDVAN ARPQGGQDIL SMMGQLMKPK KTEITDKLRG EINKVVNKYI DQGIAELVPG VLFVDEVHML DIECFTYLHR ALE SSIAPI VIFASNRGNC VIRGTEDITS PHGIPLDLLD RVMIIRTMLY TPQEMKQIIK IRAQTEGINI SEEALNHLGE IGTK TTLRY SVQLLTPANL LAKINGKDSI EKEHVEEISE LFYDAKSSAK ILADQQDKYM K

UniProtKB: RuvB-like 1

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Macromolecule #5: RuvB-like 2,RuvB-like 2/Maltose/maltodextrin-binding periplasmic ...

MacromoleculeName: RuvB-like 2,RuvB-like 2/Maltose/maltodextrin-binding periplasmic protein chimera
type: protein_or_peptide / ID: 5 / Number of copies: 3 / Enantiomer: LEVO / EC number: DNA helicase
Source (natural)Organism: Escherichia coli K-12 (bacteria)
Molecular weightTheoretical: 93.837578 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MATVTATTKV PEIRDVTRIE RIGAHSHIRG LGLDDALEPR QASQGMVGQL AARRAAGVVL EMIREGKIAG RAVLIAGQPG TGKTAIAMG MAQALGPDTP FTAIAGSEIF SLEMSKTEAL TQAFRRSIGV RIKEETEIIE GEVVEIQIDR PATGTGSKVG K LTLKTTEM ...String:
MATVTATTKV PEIRDVTRIE RIGAHSHIRG LGLDDALEPR QASQGMVGQL AARRAAGVVL EMIREGKIAG RAVLIAGQPG TGKTAIAMG MAQALGPDTP FTAIAGSEIF SLEMSKTEAL TQAFRRSIGV RIKEETEIIE GEVVEIQIDR PATGTGSKVG K LTLKTTEM ETIYDLGTKM IESLTKDKVQ AGDVITIDKA TGKISKLGRS FTRARDYDAM GSQTKFVQCP DGELQKRKEV VH TVSLHEI DVINSRTQGF LALFSGDTGE IKSEVREQIN AKVAEWREEG KAEIIPGVLF IDEVHMLDIE SFSFLNRALE SDM APVLIM ATNRGITRIR GTSYQSPHGI PIDLLDRLLI VSTTPYSEKD TKQILRIRCE EEDVEMSEDA YTVLTRIGLE TSLR YAIQL ITAASLVCRK RKGTEVQVDD IKRVYSLFLD ESRSTQYMKE YQDAFLFNEL KGETMDTSGS GGSGLEVLFQ GPGSS GGAS MKIEEGKLVI WINGDKGYNG LAEVGKKFEK DTGIKVTVEH PDKLEEKFPQ VAATGDGPDI IFWAHDRFGG YAQSGL LAE ITPDKAFQDK LYPFTWDAVR YNGKLIAYPI AVEALSLIYN KDLLPNPPKT WEEIPALDKE LKAKGKSALM FNLQEPY FT WPLIAADGGY AFKYENGKYD IKDVGVDNAG AKAGLTFLVD LIKNKHMNAD TDYSIAEAAF NKGETAMTIN GPWAWSNI D TSKVNYGVTV LPTFKGQPSK PFVGVLSAGI NAASPNKELA KEFLENYLLT DEGLEAVNKD KPLGAVALKS YEEELAKDP RIAATMENAQ KGEIMPNIPQ MSAFWYAVRT AVINAASGRQ TVDEALKDAQ TNGGSSG

UniProtKB: RuvB-like 2

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Macromolecule #6: Actin, cytoplasmic 1

MacromoleculeName: Actin, cytoplasmic 1 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 41.78266 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDDDIAALVV DNGSGMCKAG FAGDDAPRAV FPSIVGRPRH QGVMVGMGQK DSYVGDEAQS KRGILTLKYP IEHGIVTNWD DMEKIWHHT FYNELRVAPE EHPVLLTEAP LNPKANREKM TQIMFETFNT PAMYVAIQAV LSLYASGRTT GIVMDSGDGV T HTVPIYEG ...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

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Macromolecule #7: Actin-like protein 6A

MacromoleculeName: Actin-like protein 6A / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 47.509812 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSGGVYGGDE VGALVFDIGS YTVRAGYAGE DCPKVDFPTA IGMVVERDDG STLMEIDGDK GKQGGPTYYI DTNALRVPRE NMEAISPLK NGMVEDWDSF QAILDHTYKM HVKSEASLHP VLMSEAPWNT RAKREKLTEL MFEHYNIPAF FLCKTAVLTA F ANGRSTGL ...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

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Macromolecule #8: DNA methyltransferase 1-associated protein 1

MacromoleculeName: DNA methyltransferase 1-associated protein 1 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 53.090699 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MATGADVRDI LELGGPEGDA ASGTISKKDI INPDKKKSKK SSETLTFKRP EGMHREVYAL LYSDKKDAPP LLPSDTGQGY RTVKAKLGS KKVRPWKWMP FTNPARKDGA MFFHWRRAAE EGKDYPFARF NKTVQVPVYS EQEYQLYLHD DAWTKAETDH L FDLSRRFD ...String:
MATGADVRDI LELGGPEGDA ASGTISKKDI INPDKKKSKK SSETLTFKRP EGMHREVYAL LYSDKKDAPP LLPSDTGQGY RTVKAKLGS KKVRPWKWMP FTNPARKDGA MFFHWRRAAE EGKDYPFARF NKTVQVPVYS EQEYQLYLHD DAWTKAETDH L FDLSRRFD LRFVVIHDRY DHQQFKKRSV EDLKERYYHI CAKLANVRAV PGTDLKIPVF DAGHERRRKE QLERLYNRTP EQ VAEEEYL LQELRKIEAR KKEREKRSQD LQKLITAADT TAEQRRTERK APKKKLPQKK EAEKPAVPET AGIKFPDFKS AGV TLRSQR MKLPSSVGQK KIKALEQMLL ELGVELSPTP TEELVHMFNE LRSDLVLLYE LKQACANCEY ELQMLRHRHE ALAR AGVLG GPATPASGPG PASAEPAVTE PGLGPDPKDT IIDVVGAPLT PNSRKRRESA SSSSSVKKAK KP

UniProtKB: DNA methyltransferase 1-associated protein 1

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Macromolecule #9: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER

MacromoleculeName: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER / type: ligand / ID: 9 / Number of copies: 8 / Formula: AGS
Molecular weightTheoretical: 523.247 Da
Chemical component information

ChemComp-AGS:
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER / ATP-gamma-S, energy-carrying molecule analogue*YM

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Macromolecule #10: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 10 / Number of copies: 8 / Formula: MG
Molecular weightTheoretical: 24.305 Da

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.6
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 40.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: CTFFIND / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.07 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION / Number images used: 45284
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION

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