PDB entry 6kix

View 6kix on RCSB PDB site
Description: cryo-em structure of human mll1-ncp complex, binding mode1
Deposited on 2019-07-20, released 2019-09-11
The last revision was dated 2019-11-06, with a file datestamp of 2019-11-01.
Experiment type: EM
Resolution: 4.1 Å
R-factor: N/A
AEROSPACI score: 0.06 (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
      • engineered mutation (28)
      • engineered mutation (116)
  • 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 (Start-121)
      • engineered mutation (28)
      • engineered mutation (116)
  • Chain 'I':
    Compound: DNA (145-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'J':
    Compound: DNA (145-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'K':
    Compound: Histone-lysine N-methyltransferase 2A
    Species: Homo sapiens [TaxId:9606]
    Gene: KMT2A, ALL1, CXXC7, HRX, HTRX, MLL, MLL1, TRX1
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: Retinoblastoma-binding protein 5
    Species: Homo sapiens [TaxId:9606]
    Gene: RBBP5, RBQ3
    Database cross-references and differences (RAF-indexed):
  • Chain 'R':
    Compound: WD repeat-containing protein 5
    Species: Homo sapiens [TaxId:9606]
    Gene: WDR5, BIG3
    Database cross-references and differences (RAF-indexed):
  • Chain 'T':
    Compound: Set1/Ash2 histone methyltransferase complex subunit ASH2
    Species: Homo sapiens [TaxId:9606]
    Gene: ASH2L, ASH2L1
    Database cross-references and differences (RAF-indexed):
  • Heterogens: SAH, ZN, LYS, GLN

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:
    >6kixA (A:)
artkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkstel
lirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvalfedtnlcaihakrvtim
pkdiqlarrirgera

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

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

    Sequence, based on observed residues (ATOM records):
    >6kixB (B:)
lrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktv
tamdvvyalkrqgrtlygfg

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

    Sequence, based on observed residues (ATOM records):
    >6kixC (C:)
rakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaa
rdnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllp

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

    Sequence, based on observed residues (ATOM records):
    >6kixD (D:)
rktrkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrsti
tsreiqtavrlllpgelakhavsegtkavtcyts

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

    Sequence, based on observed residues (ATOM records):
    >6kixE (E:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqease
aylvalfedtnlcaihakrvtimpkdiqlarrirger

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

    Sequence, based on observed residues (ATOM records):
    >6kixF (F:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfg

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

    Sequence, based on observed residues (ATOM records):
    >6kixG (G:)
kaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaard
nkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllp

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

    Sequence, based on observed residues (ATOM records):
    >6kixH (H:)
ktrkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstit
sreiqtavrlllpgelakhavsegtkavtcytsak

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6kixK (K:)
nepplnphgsaraevhlrksafdmfnflaskhrqppeynpndeeeeevqlksarratsmd
lpmpmrfrhlkktskeavgvyrspihgrglfckrnidagemvieyagnvirsiqtdkrek
yydskgigcymfriddsevvdatmhgnaarfinhscepncysrvinidgqkhivifamrk
iyrgeeltydykfpiedasnklpcncgakkcrkfln

    Sequence, based on observed residues (ATOM records):
    >6kixK (K:)
araevhlrksafdmfnflaskhrqarratsmdlpmpmrfrhlkktskeavgvyrspihgr
glfckrnidagemvieyagnvirsiqtdkrekyydskgigcymfriddsevvdatmhgna
arfinhscepncysrvinidgqkhivifamrkiyrgeeltydyklpcncgakkcrkfln

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6kixN (N:)
mnlellesfgqnypeeadgtldcismaltctfnrwgtllavgcndgriviwdfltrgiak
iisahihpvcslcwsrdghklvsastdnivsqwdvlsgdcdqrfrfpspilkvqyhprdq
nkvlvcpmksapvmltlsdskhvvlpvdddsdlnvvasfdrrgeyiytgnakgkilvlkt
dsqdlvasfrvttgtsnttaiksiefarkgscflintadriirvydgreiltcgrdgepe
pmqklqdlvnrtpwkkccfsgdgeyivagsarqhalyiweksignlvkilhgtrgellld
vawhpvrpiiasissgvvsiwaqnqvenwsafapdfkeldenveyeeresefdiededks
epeqtgadaaedeevdvtsvdpiaafcssdeeledskallylpiapevedpeenpygppp
davqtslmdegassekkrqssadgsqppkkkpkttnielqgvpndevhpllgvkgdgksk
kkqagrpkgskgkekdspfkpklykgdrglplegsakgkvqaelsqpltaggaisell

    Sequence, based on observed residues (ATOM records):
    >6kixN (N:)
qnypeeadgtldcismaltctfnrwgtllavgcndgriviwdfltrgiakiisahihpvc
slcwsrdghklvsastdnivsqwdvlsgdcdqrfrfpspilkvqyhprdqnkvlvcpmks
apvmltlsdskhvvlpvdddsdlnvvasfdrrgeyiytgnakgkilvlktdsqdlvasfr
vttgtsnttaiksiefarkgscflintadriirvydgreiltcgrdgepepmqklqdlvn
rtpwkkccfsgdgeyivagsarqhalyiweksignlvkilhgtrgellldvawhpvrpii
asissgvvsiwaqnqvenwsafapdfkeldenveyeeresefedeevdvtsv

  • Chain 'R':
    Sequence, based on SEQRES records:
    >6kixR (R:)
mateekkpeteaaraqptpsssatqskptpvkpnyalkftlaghtkavssvkfspngewl
asssadklikiwgaydgkfektisghklgisdvawssdsnllvsasddktlkiwdvssgk
clktlkghsnyvfccnfnpqsnlivsgsfdesvriwdvktgkclktlpahsdpvsavhfn
rdgslivsssydglcriwdtasgqclktlidddnppvsfvkfspngkyilaatldntlkl
wdyskgkclktytghknekycifanfsvtggkwivsgsednlvyiwnlqtkeivqklqgh
tdvvistachpteniiasaalendktiklwksdc

    Sequence, based on observed residues (ATOM records):
    >6kixR (R:)
pnyalkftlaghtkavssvkfspngewlasssadklikiwgaydgkfektisghklgisd
vawssdsnllvsasddktlkiwdvssgkclktlkghsnyvfccnfnpqsnlivsgsfdes
vriwdvktgkclktlpahsdpvsavhfnrdgslivsssydglcriwdtasgqclktlidd
dnppvsfvkfspngkyilaatldntlklwdyskgkclktytghknekycifanfsvtggk
wivsgsednlvyiwnlqtkeivqklqghtdvvistachpteniiasaalendktiklwks

  • Chain 'T':
    Sequence, based on SEQRES records:
    >6kixT (T:)
mdtqagsvdeengrqlgevelqcgictkwftadtfgidtssclpfmtnysfhcnvchhsg
ntyflrkqanlkemclsalanltwqsrtqdehpktmfskdkdiipfidkywecmttrqrp
gkmtwpnnivktmskerdvflvkehpdpgskdpeedypkfglldqdlsnigpaydnqkqs
savstsgnlnggiaagssgkgrgakrkqqdggttgttkkarsdplfsaqrlpphgypleh
pfnkdgyryilaepdphapdpekleldcwagkpipgdlyraclyervllalhdrapqlki
sddrltvvgekgysmvrashgvrkgawyfeitvdemppdtaarlgwsqplgnlqaplgyd
kfsyswrskkgtkfhqsigkhyssgygqgdvlgfyinlpedtetakslpdtykdkalikf
ksylyfeekdfvdkaekslkqtphseiifykngvnqgvaykdifegvyfpaislyksctv
sinfgpcfkyppkdltyrpmsdmgwgavvehtladvlyhvetevdgrrsppwep

    Sequence, based on observed residues (ATOM records):
    >6kixT (T:)
vllalhdrapqlkisddrltvvgekgysmvrashgvrkgawyfeitvdemppdtaarlgw
sqplgnlqaplgydkfsyswrskkgtkfhqsigkhyssgygqgdvlgfyinlpephseii
fykngvnqgvaykdifegvyfpaislyksctvsinfgpcfkyppkdltyrpmsdmg