PDB entry 2ybp

View 2ybp on RCSB PDB site
Description: jmjd2a complexed with r-2-hydroxyglutarate and histone h3k36me3 peptide (30-41)
Deposited on 2011-03-09, released 2011-03-30
The last revision was dated 2019-01-30, with a file datestamp of 2019-01-25.
Experiment type: XRAY
Resolution: 2.02 Å
R-factor: N/A
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: lysine-specific demethylase 4a
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: lysine-specific demethylase 4a
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Histone H3.1t
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Histone H3.1t
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: NI, ZN, GOL, 2HG, HOH

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:
    >2ybpA (A:)
mhhhhhhssgvdlgtenlyfqsmasesetlnpsarimtfyptmeefrnfsryiayiesqg
ahraglakvvppkewkprasyddiddlvipapiqqlvtgqsglftqyniqkkamtvrefr
kiansdkyctprysefeelerkywknltfnppiygadvngtlyekhvdewnigrlrtild
lvekesgitiegvntpylyfgmwktsfawhtedmdlysinylhfgepkswysvppehgkr
lerlakgffpgsaqsceaflrhkmtlisplmlkkygipfdkvtqeagefmitfpygyhag
fnhgfncaestnfatrrwieygkqavlcscrkdmvkismdvfvrkfqperyklwkagkdn
tvidhtlptpeaaeflkesel

    Sequence, based on observed residues (ATOM records):
    >2ybpA (A:)
tlnpsarimtfyptmeefrnfsryiayiesqgahraglakvvppkewkprasyddiddlv
ipapiqqlvtgqsglftqyniqkkamtvrefrkiansdkyctprysefeelerkywknlt
fnppiygadvngtlyekhvdewnigrlrtildlvekesgitiegvntpylyfgmwktsfa
whtedmdlysinylhfgepkswysvppehgkrlerlakgffpgsaqsceaflrhkmtlis
plmlkkygipfdkvtqeagefmitfpygyhagfnhgfncaestnfatrrwieygkqavlc
scrkdmvkismdvfvrkfqperyklwkagkdntvidhtlptpeaaeflk

  • Chain 'B':
    Sequence, based on SEQRES records:
    >2ybpB (B:)
mhhhhhhssgvdlgtenlyfqsmasesetlnpsarimtfyptmeefrnfsryiayiesqg
ahraglakvvppkewkprasyddiddlvipapiqqlvtgqsglftqyniqkkamtvrefr
kiansdkyctprysefeelerkywknltfnppiygadvngtlyekhvdewnigrlrtild
lvekesgitiegvntpylyfgmwktsfawhtedmdlysinylhfgepkswysvppehgkr
lerlakgffpgsaqsceaflrhkmtlisplmlkkygipfdkvtqeagefmitfpygyhag
fnhgfncaestnfatrrwieygkqavlcscrkdmvkismdvfvrkfqperyklwkagkdn
tvidhtlptpeaaeflkesel

    Sequence, based on observed residues (ATOM records):
    >2ybpB (B:)
sesetlnpsarimtfyptmeefrnfsryiayiesqgahraglakvvppkewkprasyddi
ddlvipapiqqlvtgqsglftqyniqkkamtvrefrkiansdkyctprysefeelerkyw
knltfnppiygadvngtlyekhvdewnigrlrtildlvekesgitiegvntpylyfgmwk
tsfawhtedmdlysinylhfgepkswysvppehgkrlerlakgffpgsaqsceaflrhkm
tlisplmlkkygipfdkvtqeagefmitfpygyhagfnhgfncaestnfatrrwieygkq
avlcscrkdmvkismdvfvrkfqperyklwkagkdntvidhtlptpeaaeflk

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records:
    >2ybpC (C:)
patggvkkphry

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records:
    >2ybpD (D:)
patggvkkphry