PDB entry 6opn

View 6opn on RCSB PDB site
Description: cd4- and 17-bound hiv-1 env b41 sosip in complex with small molecule go35
Deposited on 2019-04-25, released 2020-10-21
The last revision was dated 2020-12-09, with a file datestamp of 2020-12-04.
Experiment type: EM
Resolution: 3.5 Å
R-factor: N/A
AEROSPACI score: 0.2 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UES2
      • engineered mutation (511)
  • Chain 'B':
    Compound: envelope glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6
      • engineered mutation (93)
  • Chain 'C':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UES2
      • engineered mutation (511)
  • Chain 'E':
    Compound: envelope glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6
      • engineered mutation (93)
  • Chain 'F':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UES2
      • engineered mutation (511)
  • Chain 'H':
    Compound: envelope glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6
      • engineered mutation (93)
  • Chain 'I':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Heterogens: N07, NAG

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:
    >6opnA (A:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6opnA (A:)
akkwvtvyygvpvwkeatttlfcasddtevhnvwathacvptdpnivlgnvtenfnmwkn
nmveqmhediislwdqslkpcvkltpntsvitqacpkvsfepipihycapagfailkcns
ktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktiivqlne
aveinctrpnnntrksnirqahcniskarwnetlgqivakleeqfpnktiifnhssggdp
eivthsfncggeffycnttplfnqnitlqcrikqiinmwqgvgkamyappirgqircssn
itgllltrdggtetfrpgggnmrdnwrselykykvvkieplgiaptackrrv

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6opnB (B:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6opnB (B:)
ilgflgaagstmgaasmaltvqarlllsgiqltvwgikqlqarvlaverylrdqqllgiw
gcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekn
eqel

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6opnC (C:)
metdtlllwvlllwvpgstgkkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnq
gsfltkgpsklndradsrrslwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgl
tansdthllqgqsltltlesppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtct
vlqnqkkvefkidivvlaggsghhhhhh

    Sequence, based on observed residues (ATOM records):
    >6opnC (C:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevql

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6opnD (D:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6opnD (D:)
akkwvtvyygvpvwkeatttlfcasddtevhnvwathacvptdpnivlgnvtenfnmwkn
nmveqmhediislwdqslkpcvkltpntsvitqacpkvsfepipihycapagfailkcns
ktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktiivqlne
aveinctrpnnntrksnirqahcniskarwnetlgqivakleeqfpnktiifnhssggdp
eivthsfncggeffycnttplfnqnitlqcrikqiinmwqgvgkamyappirgqircssn
itgllltrdggtetfrpgggnmrdnwrselykykvvkieplgiaptackrrv

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6opnE (E:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6opnE (E:)
ilgflgaagstmgaasmaltvqarlllsgiqltvwgikqlqarvlaverylrdqqllgiw
gcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekn
eqel

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6opnF (F:)
metdtlllwvlllwvpgstgkkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnq
gsfltkgpsklndradsrrslwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgl
tansdthllqgqsltltlesppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtct
vlqnqkkvefkidivvlaggsghhhhhh

    Sequence, based on observed residues (ATOM records):
    >6opnF (F:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevql

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6opnG (G:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6opnG (G:)
akkwvtvyygvpvwkeatttlfcasddtevhnvwathacvptdpnivlgnvtenfnmwkn
nmveqmhediislwdqslkpcvkltpntsvitqacpkvsfepipihycapagfailkcns
ktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktiivqlne
aveinctrpnnntrksnirqahcniskarwnetlgqivakleeqfpnktiifnhssggdp
eivthsfncggeffycnttplfnqnitlqcrikqiinmwqgvgkamyappirgqircssn
itgllltrdggtetfrpgggnmrdnwrselykykvvkieplgiaptackrrv

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6opnH (H:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6opnH (H:)
ilgflgaagstmgaasmaltvqarlllsgiqltvwgikqlqarvlaverylrdqqllgiw
gcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekn
eqel

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6opnI (I:)
metdtlllwvlllwvpgstgkkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnq
gsfltkgpsklndradsrrslwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgl
tansdthllqgqsltltlesppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtct
vlqnqkkvefkidivvlaggsghhhhhh

    Sequence, based on observed residues (ATOM records):
    >6opnI (I:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevql