PDB entry 3u8u

View 3u8u on RCSB PDB site
Description: Crystal structure of Human Apurinic/Apyridinimic Endonuclease, Ape1 in a new crystal form
Class: hydrolase, lyase
Keywords: Endonuclease, HYDROLASE, LYASE
Deposited on 2011-10-17, released 2011-10-26
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-10-26, with a file datestamp of 2011-10-21.
Experiment type: XRAY
Resolution: 2.15 Å
R-factor: 0.2
AEROSPACI score: 0.38 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8ua_
  • Chain 'B':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8ub_
  • Chain 'C':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8uc_
  • Chain 'D':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8ud_
  • Chain 'E':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8ue_
  • Chain 'F':
    Compound: DNA-(apurinic or apyrimidinic site) lyase
    Species: Homo sapiens [TaxId:9606]
    Gene: APEX1, APE, APE1, APEX, APX, HAP1, REF1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3u8uf_
  • Heterogens: MG, CL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3u8uA (A:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uA (A:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefd
sfvlvtayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnp
kgnkknagftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrld
yfllshsllpalcdskirskalgsdhcpitlylal

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3u8uB (B:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uB (B:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefd
sfvlvtayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnp
kgnkknagftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrld
yfllshsllpalcdskirskalgsdhcpitlylal

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3u8uC (C:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uC (C:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefd
sfvlvtayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnp
kgnkknagftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrld
yfllshsllpalcdskirskalgsdhcpitlylal

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3u8uD (D:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uD (D:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvt
ayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkkn
agftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllsh
sllpalcdskirskalgsdhcpitlylal

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3u8uE (E:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uE (E:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsdsgvgllsrqcplkvsygigdeehdqegrvivaefdsfvl
vtayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnk
knagftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfll
shsllpalcdskirskalgsdhcpitlylal

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3u8uF (F:)
mpkrgkkgavaedgdelrtepeakksktaakkndkeaagegpalyedppdqktspsgkpa
tlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenklpaelqelpglshqyws
apsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefdsfvlvtayvpnagrglv
rleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnpkgnkknagftpqerqgf
gellqavpladsfrhlypntpyaytfwtymmnarsknvgwrldyfllshsllpalcdski
rskalgsdhcpitlylal

    Sequence, based on observed residues (ATOM records): (download) 
    >3u8uF (F:)
lyedppdqktspsgkpatlkicswnvdglrawikkkgldwvkeeapdilclqetkcsenk
lpaelqelpglshqywsapsdkegysgvgllsrqcplkvsygigdeehdqegrvivaefd
sfvlvtayvpnagrglvrleyrqrwdeafrkflkglasrkplvlcgdlnvaheeidlrnp
kgnkknagftpqerqgfgellqavpladsfrhlypntpyaytfwtymmnarsknvgwrld
yfllshsllpalcdskirskalgsdhcpitlylal