PDB entry 6opp

View 6opp on RCSB PDB site
Description: asymmetric model of cd4- and 17-bound b41 hiv-1 env sosip in complex with ddm
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: 3.7 Å
R-factor: N/A
AEROSPACI score: 0.18 (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 (0-152)
      • 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 (Start-152)
      • 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: 17b Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Chain 'H':
    Compound: 17b Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Chain 'I':
    Compound: 17b Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Chain 'J':
    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 'K':
    Compound: envelope glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6 (Start-152)
      • engineered mutation (93)
  • Chain 'L':
    Compound: 17b Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Chain 'M':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: 17b Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Chain 'O':
    Compound: 17b Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPP (0-End)
  • Heterogens: LMT, 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:
    >6oppA (A:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6oppA (A:)
akkwvtvyygvpvwkeatttlfcasdakaydtevhnvwathacvptdpnpqeivlgnvte
nfnmwknnmveqmhediislwdqslkpcvkltplcvtlnclincntsvitqacpkvsfep
ipihycapagfailkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivi
rsenitdnaktiivqlneaveinctrpnnntrksihinirqahcniskarwnetlgqiva
kleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyqnitl
qcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrpgggnmr
dnwrselykykvvkieplgiaptackrrv

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

    Sequence, based on observed residues (ATOM records):
    >6oppB (B:)
avglgafilgflgaagstmgaasmaltvqarlllsgiqltvwgikqlqarvlaverylrd
qqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevs
qiqqekneqelleld

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

    Sequence, based on observed residues (ATOM records):
    >6oppC (C:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

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

    Sequence, based on observed residues (ATOM records):
    >6oppD (D:)
akkwvtvyygvpvwkeatttlfcasdakaydtevhnvwathacvptdpnpqeivlgnvte
nfnmwknnmveqmhediislwdqslkpcvkltplcvtlnclincntsvitqacpkvsfep
ipihycapagfailkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivi
rsenitdnaktiivqlneaveinctrpnnntrksihinirqahcniskarwnetlgqiva
kleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyqnitl
qcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrpgggnmr
dnwrselykykvvkieplgiaptackrrv

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

    Sequence, based on observed residues (ATOM records):
    >6oppE (E:)
vglgafilgflgaagstmgaasmaltvqarlllsgiqhmlqltvwgikqlqarvlavery
lrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytll
evsqiqqekneqelleld

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

    Sequence, based on observed residues (ATOM records):
    >6oppF (F:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6oppG (G:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvtsastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvht
fpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepk

    Sequence, based on observed residues (ATOM records):
    >6oppG (G:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvt

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6oppH (H:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvtsastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvht
fpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepk

    Sequence, based on observed residues (ATOM records):
    >6oppH (H:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvt

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6oppI (I:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikrtvaapsvfif
ppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsst
ltlskadyekhkvyacevthqglsspvtksfnrg

    Sequence, based on observed residues (ATOM records):
    >6oppI (I:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikr

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

    Sequence, based on observed residues (ATOM records):
    >6oppJ (J:)
akkwvtvyygvpvwkeatttlfcasdakaydtevhnvwathacvptdpnpqeivlgnvte
nfnmwknnmveqmhediislwdqslkpcvkltplcvcntsvitqacpkvsfepipihyca
pagfailkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitd
naktiivqlneaveinctrpnnntrksihinirqahcniskarwnetlgqivakleeqfp
nktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyqnitlqcrikqi
inmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrpgggnmrdnwrsel
ykykvvkieplgiaptackrrv

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

    Sequence, based on observed residues (ATOM records):
    >6oppK (K:)
filgflgaagstmgaasmaltvqarlllsgmlqltvwgikqlqarvlaverylrdqqllg
iwgcsgkiicctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqe
kneqelleld

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6oppL (L:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikrtvaapsvfif
ppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsst
ltlskadyekhkvyacevthqglsspvtksfnrg

    Sequence, based on observed residues (ATOM records):
    >6oppL (L:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikr

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

    Sequence, based on observed residues (ATOM records):
    >6oppM (M:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6oppN (N:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvtsastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvht
fpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepk

    Sequence, based on observed residues (ATOM records):
    >6oppN (N:)
qvqllesgaevkkpgssvkvsckasgdtfirysftwvrqapgqglewmgriitildvahy
aphlqgrvtitadkststvylelrnlrsddtavyfcagvyegeadegeydnngflkhwgq
gtlvtvt

  • Chain 'O':
    Sequence, based on SEQRES records:
    >6oppO (O:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikrtvaapsvfif
ppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsst
ltlskadyekhkvyacevthqglsspvtksfnrg

    Sequence, based on observed residues (ATOM records):
    >6oppO (O:)
eleltqspatlsvspgeratlscrasesvssdlawyqqkpgqaprlliygastratgvpa
rfsgsgsgaeftltisslqsedfavyycqqynnwpprytfgqgtrleikr