PDB entry 6opa

View 6opa on RCSB PDB site
Description: crystal structure of bovine fab nc-cow1 in complex with hiv-1 bg505 sosip.664, and human fabs 35022 and pgt128
Deposited on 2019-04-24, released 2020-04-01
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-09.
Experiment type: XRAY
Resolution: 4.08 Å
R-factor: N/A
AEROSPACI score: 0.11 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'B':
    Compound: envelope glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • engineered mutation (93)
  • Chain 'F':
    Compound: Fab 35022 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA
  • Chain 'G':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (300)
      • conflict (468)
  • Chain 'I':
    Compound: Fab 35022 light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA
  • Chain 'J':
    Compound: Fab PGT128 light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA
  • Chain 'K':
    Compound: Fab PGT128 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA
  • Chain 'R':
    Compound: Fab NC-Cow1 light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA
  • Chain 'S':
    Compound: Fab NC-Cow1 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPA (0-End)
  • 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 'B':
    Sequence, based on SEQRES records:
    >6opaB (B:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllrapeaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6opaB (B:)
flgflgaagstmgaasmtltvqarnllsgivqqqstvwgikqlqarvlaverylrdqqll
giwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqq
ekneqdlla

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6opaF (F:)
egqlvqsgaelkkpgasvkiscktsgyrfnfyhinwirqtagrgpewmgwispysgdknl
apafqdrvimttdtevpvtsftstgaaymeirnlkfddtgtyfcakgllrdgsstwlpyl
wgqgtlltvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsg
vhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkglev

    Sequence, based on observed residues (ATOM records):
    >6opaF (F:)
gqlvqsgaelkkpgasvkiscktsgyrfnfyhinwirqtagrgpewmgwispysgdknla
pafqdrvimttdtevpvtsftstgaaymeirnlkfddtgtyfcakgllrdgsstwlpylw
gqgtlltvss

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6opaG (G:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
mirsenitnnaknilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahc
nvskatwnetlgkvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndsitlpcrikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvg

    Sequence, based on observed residues (ATOM records):
    >6opaG (G:)
enlwvtvyygvpvwkdaettlfcasdanvwathacvptdpnpqeihlenvteefnmwknn
mveqmhtdiislwdqslkpcvkltplcvtlqctnvelkncsfnmttelrdkkqkvyslfy
rldvvqinkeyrlincntsaitqacpkvsfepipihycapagfailkckdkkfngtgpcp
svstvqcthgikpvvstqlllngslaeeevmirsenitnnaknilvqfntpvqinctrpn
nntrksirigpgqafyatgdiigdirqahcnvskatwnetlgkvvkqlrkhfirfanssg
gdlevtthsfncggeffycntsglfnstwisndsitlpcrikqiinmwqrigqamyappi
qgvircvsnitgliltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvapt
rckrrvv

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6opaI (I:)
qsvltqsasvsgslgqsvtisctgpnsvccshksiswyqwppgraptliiyednerapgi
sprfsgyksywsayltisdlrpedettyyccsythnsgcvfgtgtkvsvlgqskanpsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6opaI (I:)
svltqsasvsgslgqsvtisctgpnsvccshksiswyqwppgraptliiyednerapgis
prfsgyksywsayltisdlrpedettyyccsythnsgcvfgtgtkvsvlg

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6opaJ (J:)
qsaltqppsasgspgqsitisctgtsnnfvswyqqhagkapklviydvnkrpsgvpdrfs
gsksgntasltvsglqtddeavyycgslvgnwdvifgggtkltvlgqpkaapsvtlfpps
seelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassylslt
peqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6opaJ (J:)
altqppsasgspgqsitisctgtsnnfvswyqqhagkapklviydvnkrpsgvpdrfsgs
ksgntasltvsglqtddeavyycgslvgnwdvifgggtkltv

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6opaK (K:)
epqlqesgptlveasetlsltcavsgdstaacnsfwgwvrqppgkglewvgslshcasyw
nrgwtyhnpslksrltlaldtpknlvflklnsvtaadtatyycarfggevlrytdwpkpa
wvdlwgrgtlvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsga
ltsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscd

    Sequence, based on observed residues (ATOM records):
    >6opaK (K:)
pqlqesgptlveasetlsltcavsgdstaacnsfwgwvrqppgkglewvgslshcasywn
rgwtyhnpslksrltlaldtpknlvflklnsvtaadtatyycarfggevlrytdwpkpaw
vdlwgrgtlvtv

  • Chain 'R':
    Sequence, based on SEQRES records:
    >6opaR (R:)
syeltqpssvsgslgqrvsvtcsgsssnvgngyvswyqlipgsaprtiiygdtsrasgvp
erfsgsrsgntatltisslqaedeadffcaspddsssnavfgsgttltvlgqpksppsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6opaR (R:)
yeltqpssvsgslgqrvsvtcsgsssnvgngyvswyqlipgsaprtiiygdtsrasgvpe
rfsgsrsgntatltisslqaedeadffcaspddsssnavfgsgttltvlgqp

  • Chain 'S':
    Sequence, based on SEQRES records:
    >6opaS (S:)
qvqlresgpslmkpsqtlsltctvsgsslndksvgwvrqapgkalqwlgsvdtsgntdyn
pglksrlsitkdnsksrisltvtgmttedsatyycitahqktnkkecpedytynprcpqq
ygwsdcdcmgdrfggycrqdgcsnyihrstyewyvsawgqgllvtvssastkgpsvfpla
psskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvvtvp
ssslgtqtyicnvnhkpsntkvdkrvepkscd

    Sequence, based on observed residues (ATOM records):
    >6opaS (S:)
qvqlresgpslmkpsqtlsltctvsgsslndksvgwvrqapgkalqwlgsvdtsgntdyn
pglksrlsitkdnsksrisltvtgmttedsatyycitahqktnkkecpedytynprcpqq
ygwsdcdcmgdrfggycrqdgcsnyihrstyewyvsawgqgllvtvss