PDB entry 6u59

View 6u59 on RCSB PDB site
Description: hiv-1 b41 sosip.664 in complex with rabbit antibody 13b
Deposited on 2019-08-27, released 2020-01-29
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: EM
Resolution: 3.86 Å
R-factor: N/A
AEROSPACI score: 0.16 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: SOSIP.664 gp120,SOSIP.664 gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59
    • Uniprot B3UES2 (35-End)
      • engineered mutation (511)
  • Chain 'B':
    Compound: SOSIP.664 gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6 (Start-152)
      • engineered mutation (93)
  • Chain 'C':
    Compound: SOSIP.664 gp120,SOSIP.664 gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59
    • Uniprot B3UES2 (35-End)
      • engineered mutation (511)
  • Chain 'D':
    Compound: SOSIP.664 gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6 (Start-152)
      • engineered mutation (93)
  • Chain 'E':
    Compound: rabbit antibody 13B Fragment antigen binding light chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-111)
  • Chain 'F':
    Compound: rabbit antibody 13B Fragment antigen binding heavy chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-End)
  • Chain 'G':
    Compound: SOSIP.664 gp120,SOSIP.664 gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59
    • Uniprot B3UES2 (35-End)
      • engineered mutation (511)
  • Chain 'H':
    Compound: rabbit antibody 13B Fragment antigen binding heavy chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-End)
  • Chain 'I':
    Compound: SOSIP.664 gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3UEZ6 (Start-152)
      • engineered mutation (93)
  • Chain 'J':
    Compound: rabbit antibody 13B Fragment antigen binding light chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-111)
  • Chain 'K':
    Compound: rabbit antibody 13B Fragment antigen binding heavy chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-End)
  • Chain 'L':
    Compound: rabbit antibody 13B Fragment antigen binding light chain
    Species: Oryctolagus cuniculus [TaxId:9986]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U59 (0-111)
  • Heterogens: 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:
    >6u59A (A:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u59A (A:)
aakkwvtvyygvpvwkeatttlfcastevhnvwathacvptdpnpqeivlgnvtenfnmw
knnmveqmhediislwdqslkpcvkltplcvtlncnnvntnnsdwekmetgemkncsfnv
ttsirdkikkeyalfykldvvpltnyrlincntsvitqacpkvsfepipihycapagfai
lkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktii
vqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqiv
akleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptgg
eqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrp
gggnmrdnwrselykykvvkieplgiaptackrr

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6u59B (B:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6u59B (B:)
aagstmgaasmaltvqarlhmlqltvwgikqlqarvlaverylrdqqllgiwgcsgkiic
ctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekneqelleld

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6u59C (C:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u59C (C:)
aakkwvtvyygvpvwkeatttlfcastevhnvwathacvptdpnpqeivlgnvtenfnmw
knnmveqmhediislwdqslkpcvkltplcvtlncnnvntnnsdwekmetgemkncsfnv
ttsirdkikkeyalfykldvvpltnyrlincntsvitqacpkvsfepipihycapagfai
lkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktii
vqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqiv
akleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptgg
eqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrp
gggnmrdnwrselykykvvkieplgiaptackrr

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6u59D (D:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6u59D (D:)
aagstmgaasmaltvqarlhmlqltvwgikqlqarvlaverylrdqqllgiwgcsgkiic
ctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekneqelleld

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records:
    >6u59E (E:)
divmtqtpasvsepvggtvtincqasqsrgnnylswyqqkpgqspslliyrtstlasgvp
srfkgsgsgtqftltisdlecadaatyyclygyyssrnpdfafgggtevvvk

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6u59F (F:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvss

    Sequence, based on observed residues (ATOM records):
    >6u59F (F:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvs

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6u59G (G:)
mdamkrglccvlllcgavfvspsqeiharfrrgaraakkwvtvyygvpvwkeatttlfca
sdakaydtevhnvwathacvptdpnpqeivlgnvtenfnmwknnmveqmhediislwdqs
lkpcvkltplcvtlncnnvntnntnnstnatisdwekmetgemkncsfnvttsirdkikk
eyalfykldvvplenknninntnitnyrlincntsvitqacpkvsfepipihycapagfa
ilkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnakti
ivqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqi
vakleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptg
geqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfr
pgggnmrdnwrselykykvvkieplgiaptackrrvvqrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u59G (G:)
aakkwvtvyygvpvwkeatttlfcastevhnvwathacvptdpnpqeivlgnvtenfnmw
knnmveqmhediislwdqslkpcvkltplcvtlncnnvntnnsdwekmetgemkncsfnv
ttsirdkikkeyalfykldvvpltnyrlincntsvitqacpkvsfepipihycapagfai
lkcnsktfngsgpctnvstvqcthgirpvvstqlllngslaeeeivirsenitdnaktii
vqlneaveinctrpnnntrksihigpgrafyatgdiignirqahcniskarwnetlgqiv
akleeqfpnktiifnhssggdpeivthsfncggeffycnttplfnstwnntrtddyptgg
eqnitlqcrikqiinmwqgvgkamyappirgqircssnitgllltrdggrdqngtetfrp
gggnmrdnwrselykykvvkieplgiaptackrr

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6u59H (H:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvss

    Sequence, based on observed residues (ATOM records):
    >6u59H (H:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvs

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6u59I (I:)
avglgafilgflgaagstmgaasmaltvqarlllsgivqqqnnllrapeaqqhmlqltvw
gikqlqarvlaverylrdqqllgiwgcsgkiicctnvpwndswsnktineiwdnmtwmqw
ekeidnytqhiytllevsqiqqekneqelleld

    Sequence, based on observed residues (ATOM records):
    >6u59I (I:)
aagstmgaasmaltvqarlhmlqltvwgikqlqarvlaverylrdqqllgiwgcsgkiic
ctnvpwndswsnktineiwdnmtwmqwekeidnytqhiytllevsqiqqekneqelleld

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records:
    >6u59J (J:)
divmtqtpasvsepvggtvtincqasqsrgnnylswyqqkpgqspslliyrtstlasgvp
srfkgsgsgtqftltisdlecadaatyyclygyyssrnpdfafgggtevvvk

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6u59K (K:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvss

    Sequence, based on observed residues (ATOM records):
    >6u59K (K:)
leesggglvqpegsltltckasgfdfsdyhvqwvrqspgkglefiggiaytgniyyaswa
kgrftisktssttvtlqmttltaadtatyfcaraygyasapyaqyfnlwgpgtlvtvs

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records:
    >6u59L (L:)
divmtqtpasvsepvggtvtincqasqsrgnnylswyqqkpgqspslliyrtstlasgvp
srfkgsgsgtqftltisdlecadaatyyclygyyssrnpdfafgggtevvvk