PDB entry 6ryr

View 6ryr on RCSB PDB site
Description: nucleosome-chd4 complex structure (single chd4 copy)
Deposited on 2019-06-11, released 2020-07-15
The last revision was dated 2020-07-15, with a file datestamp of 2020-07-10.
Experiment type: EM
Resolution: 3.1 Å
R-factor: N/A
AEROSPACI score: 0.12 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Histone H3.2
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P84233
      • conflict (102)
  • Chain 'B':
    Compound: histone h4
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Histone H2A type 1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P06897
      • conflict (99)
  • Chain 'D':
    Compound: Histone H2B 1.1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P02281 (Start-122)
      • conflict (29)
  • Chain 'E':
    Compound: Histone H3.2
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P84233 (Start-135)
      • conflict (102)
  • Chain 'F':
    Compound: histone h4
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Histone H2A type 1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P06897
      • conflict (99)
  • Chain 'H':
    Compound: Histone H2B 1.1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P02281
      • conflict (29)
  • Chain 'I':
    Compound: DNA (149-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'J':
    Compound: DNA (149-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'W':
    Compound: Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4
    Species: Homo sapiens [TaxId:9606]
    Gene: CHD4
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q14839 (Start-1202)
    • PDB 6RYR (1203-1214)
    • Uniprot Q14839
  • Heterogens: ANP, MG, ZN

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6ryrA (A:)
    martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
    llirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvalfedtnlcaihakrvti
    mpkdiqlarrirgera
    

    Sequence, based on observed residues (ATOM records):
    >6ryrA (A:)
    phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqease
    aylvalfedtnlcaihakrvtimpkdiqlarrirger
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6ryrB (B:)
    msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
    vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
    

    Sequence, based on observed residues (ATOM records):
    >6ryrB (B:)
    krhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtyteh
    akrktvtamdvvyalkrqgrtlygfgg
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6ryrC (C:)
    msgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylt
    aeilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkk
    tessksaksk
    

    Sequence, based on observed residues (ATOM records):
    >6ryrC (C:)
    trssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaardnkk
    triiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6ryrD (D:)
    maksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsim
    nsfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyt
    sak
    

    Sequence, based on observed residues (ATOM records):
    >6ryrD (D:)
    ktrkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstit
    sreiqtavrlllpgelakhavsegtkavtkytsak
    

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6ryrE (E:)
    martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
    llirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvalfedtnlcaihakrvti
    mpkdiqlarrirgera
    

    Sequence, based on observed residues (ATOM records):
    >6ryrE (E:)
    hryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeasea
    ylvalfedtnlcaihakrvtimpkdiqlarrirgera
    

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6ryrF (F:)
    msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
    vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
    

    Sequence, based on observed residues (ATOM records):
    >6ryrF (F:)
    niqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvtam
    dvvyalkrqgrtlygfgg
    

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6ryrG (G:)
    msgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylt
    aeilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkk
    tessksaksk
    

    Sequence, based on observed residues (ATOM records):
    >6ryrG (G:)
    aktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaardn
    kktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk
    

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6ryrH (H:)
    maksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsim
    nsfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyt
    sak
    

    Sequence, based on observed residues (ATOM records):
    >6ryrH (H:)
    trkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstits
    reiqtavrlllpgelakhavsegtkavtkytsa
    

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'W':
    Sequence, based on SEQRES records:
    >6ryrW (W:)
    snamasglgspspcsagseeedmdallnnslppphpeneedpeedlsetetpklkkkkkp
    kkprdpkipkskrqkkermllcrqlgdssgegpefveeeeevalrsdsegsdytpgkkkk
    kklgpkkekkskskrkeeeeeedddddskepkssaqlledwgmedidhvfseedyrtltn
    ykafsqfvrpliaaknpkiavskmmmvlgakwrefstnnpfkgssgasvaaaaaaavavv
    esmvtatevapppppvevpirkaktkegkgpnarrkpkgsprvpdakkpkpkkvaplkik
    lggfgskrkrsssedddldvesdfddasinsysvsdgstsrssrsrkklrttkkkkkgee
    evtavdgyetdhqdycevcqqggeiilcdtcprayhmvcldpdmekapegkwscphceke
    giqweakednsegeeileevggdleeeddhhmefcrvckdggellccdtcpssyhihcln
    pplpeipngewlcprctcpalkgkvqkiliwkwgqppsptpvprppdadpntpspkpleg
    rperqffvkwqgmsywhcswvselqlelhcqvmfrnyqrkndmdeppsgdfggdeeksrk
    rknkdpkfaemeerfyrygikpewmmihrilnhsvdkkghvhylikwrdlpydqaswese
    dveiqdydlfkqsywnhrelmrgeegrpgkklkkvklrklerppetptvdptvkyerqpe
    yldatggtlhpyqmeglnwlrfswaqgtdtilademglgktvqtavflyslykeghskgp
    flvsaplstiinwerefemwapdmyvvtyvgdkdsraiirenefsfednairggkkasrm
    kkeasvkfhvlltsyelitidmailgsidwaclivdeahrlknnqskffrvlngyslqhk
    llltgtplqnnleelfhllnfltperfhnlegfleefadiakedqikklhdmlgphmlrr
    lkadvfknmpsktelivrvelspmqkkyykyiltrnfealnargggnqvsllnvvmdlkk
    ccnhpylfpvaameapkmpngmydgsalirasgkllllqkmlknlkegghrvlifsqmtk
    mldlledflehegykyeridggitgnmrqeaidrfnapgaqqfcfllstragglginlat
    adtviiydsdwnphndiqafsrahrigqnkkvmiyrfvtrasveeritqvakkkmmlthl
    vvrxxxxxxxxxxxxpglgsktgsmskqelddilkfgteelfkdeatdgggdnkegedss
    vihyddkaierlldrnqdetedtelqgmneylssfkvaqyvvreeemgeeeevereiikq
    eesvdpdywekllrhhyeqqqedlarnlgkgkrirkqvnyndgsqedrdwqddqsdnqsd
    ysvaseegdedfderseaprrpsrkglrndkdkplppllarvggnievlgfnarqrkafl
    naimrygmppqdafttqwlvrdlrgksekefkayvslfmrhlcepgadgaetfadgvpre
    glsrqhvltrigvmslirkkvqefehvngrwsmpelaeveenkkmsqpgspspktptpst
    pgdtqpntpapvppaedgikieenslkeeesiegekevkstapetaiectqapapasede
    kvvveppegeekvekaevkerteepmetepkgaadvekveeksaidltpivvedkeekke
    eeekkevmlqngetpkdlndekqkknikqrfmfniadggftelhslwqneeraatvtkkt
    yeiwhrrhdywllagiinhgyarwqdiqndpryailnepfkgemnrgnfleiknkflarr
    fklleqalvieeqlrraaylnmsedpshpsmalntrfaeveclaeshqhlskesmagnkp
    anavlhkvlkqleellsdmkadvtrlpatiarippvavrlqmsernilsrlanrapeptp
    qqvaqqq
    

    Sequence, based on observed residues (ATOM records):
    >6ryrW (W:)
    dhhmefcrvckdggellccdtcpssyhihclnpplpeipngewlcprctcpalkgkvqki
    liwkwgperqffvkwqgmsywhcswvselqlelhcqvmfrnyqrkndmdeppseeksrkr
    knkdpkfaemeerfyrygikpewmmihrilnhsvdkkghvhylikwrdlpydqaswesed
    veiqdydlfkqsywnhrelmtvdptvkyerqpeyldatggtlhpyqmeglnwlrfswaqg
    tdtilademglgktvqtavflyslykeghskgpflvsaplstiinwerefemwapdmyvv
    tyvgdkdsraiirenefsfednairggkkasrmkkeasvkfhvlltsyelitidmailgs
    idwaclivdeahrlknnqskffrvlngyslqhkllltgtplqnnleelfhllnfltperf
    hnlegfleefadiakedqikklhdmlgphmlrrlkadvfknmpsktelivrvelspmqkk
    yykyiltrnfealnargggnqvsllnvvmdlkkccnhpylfpvaameapkmpngmydgsa
    lirasgkllllqkmlknlkegghrvlifsqmtkmldlledflehegykyeridggitgnm
    rqeaidrfnapgaqqfcfllstragglginlatadtviiydsdwnphndiqafsrahrig
    qnkkvmiyrfvtrasveeritqvakkkmmlthlvvrxxxxxxxxxxxx