PDB entry 6irm

View 6irm on RCSB PDB site
Description: the crosslinked complex of iswi-nucleosome in the adp.bef-bound state
Deposited on 2018-11-13, released 2019-04-10
Made obsolete by 6jyl on 2019-05-29

The last revision was dated 2019-05-29, with a file datestamp of 2019-05-24.
Experiment type: EM
Resolution: 3.37 Å
R-factor: N/A
AEROSPACI score: 0.13 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: histone h3
    Species: Xenopus laevis [TaxId:8355]
    Gene: XELAEV_18002543mg
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: histone h4
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: histone h2a
    Species: Xenopus laevis [TaxId:8355]
    Gene: hist1h2aj, LOC494591, XELAEV_18003602mg
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Histone H2B 1.1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P02281
      • conflict (28)
  • Chain 'E':
    Compound: histone h3
    Species: Xenopus laevis [TaxId:8355]
    Gene: XELAEV_18002543mg
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: histone h4
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: histone h2a
    Species: Xenopus laevis [TaxId:8355]
    Gene: hist1h2aj, LOC494591, XELAEV_18003602mg
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Histone H2B 1.1
    Species: Xenopus laevis [TaxId:8355]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P02281
      • conflict (28)
  • Chain 'I':
    Compound: DNA (167-mer)
    Species: Escherichia coli K-12 [TaxId:83333]
  • Chain 'J':
    Compound: DNA (167-mer)
    Species: Escherichia coli K-12 [TaxId:83333]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IRM
  • Chain 'K':
    Compound: ISWI chromatin-remodeling complex ATPase ISW1
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: ISW1, YBR245C, YBR1633
    Database cross-references and differences (RAF-indexed):
  • Heterogens: ADP, BEF

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:
    >6irmA (A:)
artkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkstel
lirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvalfedtnlcaihakrvtim
pkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6irmA (A:)
kphryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeas
eaylvalfedtnlcaihakrvtimpkdiqlarrirger

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6irmB (B:)
sgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkv
flenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6irmB (B:)
gakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtyt
ehakrktvtamdvvyalkrqgrtlygfg

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6irmC (C:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk

    Sequence, based on observed residues (ATOM records):
    >6irmC (C:)
akaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaar
dnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6irmD (D:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak

    Sequence, based on observed residues (ATOM records):
    >6irmD (D:)
trkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstits
reiqtavrlllpgelakhavsegtkavtkytsa

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6irmE (E:)
artkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkstel
lirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvalfedtnlcaihakrvtim
pkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6irmE (E:)
ryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeaseay
lvalfedtnlcaihakrvtimpkdiqlarrirger

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6irmF (F:)
sgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkv
flenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6irmF (F:)
rdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvt
amdvvyalkrqgrtlygfgg

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6irmG (G:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk

    Sequence, based on observed residues (ATOM records):
    >6irmG (G:)
akaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaar
dnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6irmH (H:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak

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

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6irmJ (J:)
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    Sequence, based on observed residues (ATOM records):
    >6irmJ (J:)
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  • Chain 'K':
    Sequence, based on SEQRES records:
    >6irmK (K:)
enlkpfqvglpphdpesnkkryllkdangkkfdlegttkrfehllslsglfkhfieskaa
kdpkfrqvldvleenkangkgkgkhqdvrrrkteheedaellkeedsdddesiefqfres
payvngqlrpyqiqgvnwlvslhknkiagilademglgktlqtisflgylryiekipgpf
lviapkstlnnwlreinrwtpdvnafilqgdkeeraeliqkkllgcdfdvviasyeiiir
eksplkkinweyiiideahrikneesmlsqvlreftsrnrllitgtplqnnlhelwalln
fllpdifsdaqdfddwfssesteedqdkivkqlhtvlqpfllrriksdvetsllpkkeln
lyvgmssmqkkwykkilekdldavngsngskesktrllnimmqlrkccnhpylfdgaepg
ppyttdehlvynaaklqvldkllkklkeegsrvlifsqmsrlldiledycyfrnyeycri
dgstahedriqaiddynapdskkfvfllttragglginltsadvvvlydsdwnpqadlqa
mdrahrigqkkqvkvfrlvtdnsveekileratqklrldqlviqqnrtslkkkenkadsk
dallsmiqhgaadvfksgtstgsagtpepgsgekgddidldelllksenktkslnakyet
lglddlqkfnqdsayewngqdfkkkiqrdiisplllnptkrerkenysidnyykdvlntg
rsstpshprmpkphvfhshqlqppqlkvlyekermwtakktgyvptmddvkaaygdisde
eekkqklellklsvnnsqplteeeekmkadwesegftnwnklefrkfitvsgkygrnsiq
aiarelapgktleevrayakafwsnieriedyekylkiieneeekikrvkmqqealrrkl
seyknpffdlklkhppssnnkrtyseeedrfillmlfkygldrddvyelvrdeirdcplf
eldfyfrsrtpvelarrgntllqclekefnagivlddatkdrmkkedengkrireefadq
tanekenvdgveskkakiedtsnvgteqlvaekipenetth

    Sequence, based on observed residues (ATOM records):
    >6irmK (K:)
dlegttkrfehllslsglfkhfieskadpkfrqvldvleenqfrespayvngqlrpyqiq
gvnwlvslhknkiagilademglgktlqtisflgylryiekipgpflviapkstlnnwlr
einrwtpdvnafilqgdkeeraeliqkkllgcdfdvviasyeiiireksplkkinweyii
ideahrikneesmlsqvlreftsrnrllitgtplqnnlhelwallnfllpdifsdaqdfd
dwfssesteedqdkivkqlhtvlqpfllrriksdvetsllpkkelnlyvgmssmqkkwyk
kilekdesktrllnimmqlrkccnhpylfdgaepgppyttdehlvynaaklqvldkllkk
lkeegsrvlifsqmsrlldiledycyfrnyeycridgstahedriqaiddynapdskkfv
fllttragglginltsadvvvlydsdwnpqadlqamdrahrigqkkqvkvfrlvtdnsve
ekileratqklrldqlviqqnrts