PDB entry 6orp

View 6orp on RCSB PDB site
Description: modified bg505 sosip-based immunogen rc1 in complex with the elicited v3-glycan patch antibody ab897nhp
Deposited on 2019-04-30, released 2019-06-12
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: EM
Resolution: 4.4 Å
R-factor: N/A
AEROSPACI score: 0.07 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (Start-152)
  • Chain 'B':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (0-End)
  • Chain 'C':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (Start-152)
  • Chain 'D':
    Compound: Ab897NHP antibody Fab heavy chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • Chain 'E':
    Compound: Ab897NHP antibody Fab light chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • Chain 'F':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (Start-152)
  • Chain 'G':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (0-End)
  • Chain 'H':
    Compound: Ab897NHP antibody Fab heavy chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • Chain 'I':
    Compound: RC1 variant of HIV-1 Env glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP (0-End)
  • Chain 'J':
    Compound: Ab897NHP antibody Fab heavy chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • Chain 'K':
    Compound: Ab897NHP antibody Fab light chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • Chain 'L':
    Compound: Ab897NHP antibody Fab light chain
    Species: Macaca mulatta [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ORP
  • 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:
    >6orpA (A:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6orpA (A:)
vslgflgaagstmgaasmtltvqarnllshwgikqlqarvlavehylrdqqllgiwgcsg
klicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdl
lald

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6orpB (B:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpnnntvksirigpgqafyyfgdiigdirmahc
nvskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndsivlpcrikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6orpB (B:)
aenlwvtvyygvpvwkdaettlfcasdhnvwathacvptpqeihlenvteefnmwknnmv
eqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcsfnmttelrdkk
qkvyslfyrldvvqinsnkeyrlincntsaitqacpkvsfepipihycapagfailkckd
kkfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlnt
pvqinctrpnnntvksirigpgqafyyfgdiigdirmahcnvskatwnetlgkvvkqlrk
hfgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisnndsivlpcrikqi
inmwqrigqamyappiqgvircvsnitgliltrdggstnsttetfrpgggdmrdnwrsel
ykykvvkieplgvaptrckrrv

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6orpC (C:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6orpC (C:)
vslgflgaagstmgaasmtltvqarnllshwgikqlqarvlavehylrdqqllgiwgcsg
klicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdl
lald

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6orpD (D:)
mgwsciilflvatatgvhsevqllesgpglvkpsetlsltcavsggsisssnwwswirqp
pgkglewigniggssgntyynpslksrvtiskdtsknqfslklnsvtaadtavyycards
sgwpwdnrfdvwgagvlvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvt
vswnsgaltsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntxvdkrv
epkscdkthhhhhh

    Sequence, based on observed residues (ATOM records):
    >6orpD (D:)
evqllesgpglvkpsetlsltcavsggsisssnwwswirqppgkglewigniggssgnty
ynpslksrvtiskdtsknqfslklnsvtaadtavyycardssgwpwdnrfdvwgagvlvt
vssa

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6orpE (E:)
mgwsciilflvatatgswaqsaltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlp
gtapklliyennkrpsglsdrfsgsqsgtsasltitglqsedeadyycqsydnslsaqvf
gggtrltvlgqpkaapsvtlfppsseelqankatlvclisdfypgavtvawkadsspvka
gvetttpskqsnnkyaassylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6orpE (E:)
saltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlpgtapklliyennkrpsglsd
rfsgsqsgtsasltitglqsedeadyycqsydnslsaqvfgggtrltvl

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6orpF (F:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6orpF (F:)
vslgflgaagstmgaasmtltvqarnllshwgikqlqarvlavehylrdqqllgiwgcsg
klicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdl
lald

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6orpG (G:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpnnntvksirigpgqafyyfgdiigdirmahc
nvskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndsivlpcrikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6orpG (G:)
aenlwvtvyygvpvwkdaettlfcasdhnvwathacvptpqeihlenvteefnmwknnmv
eqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcsfnmttelrdkk
qkvyslfyrldvvqinsnkeyrlincntsaitqacpkvsfepipihycapagfailkckd
kkfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlnt
pvqinctrpnnntvksirigpgqafyyfgdiigdirmahcnvskatwnetlgkvvkqlrk
hfgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisnndsivlpcrikqi
inmwqrigqamyappiqgvircvsnitgliltrdggstnsttetfrpgggdmrdnwrsel
ykykvvkieplgvaptrckrrv

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6orpH (H:)
mgwsciilflvatatgvhsevqllesgpglvkpsetlsltcavsggsisssnwwswirqp
pgkglewigniggssgntyynpslksrvtiskdtsknqfslklnsvtaadtavyycards
sgwpwdnrfdvwgagvlvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvt
vswnsgaltsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntxvdkrv
epkscdkthhhhhh

    Sequence, based on observed residues (ATOM records):
    >6orpH (H:)
evqllesgpglvkpsetlsltcavsggsisssnwwswirqppgkglewigniggssgnty
ynpslksrvtiskdtsknqfslklnsvtaadtavyycardssgwpwdnrfdvwgagvlvt
vssa

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6orpI (I:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpnnntvksirigpgqafyyfgdiigdirmahc
nvskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndsivlpcrikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6orpI (I:)
aenlwvtvyygvpvwkdaettlfcasdhnvwathacvptpqeihlenvteefnmwknnmv
eqmhediislwdqslkpcvkltplcvtlqctnyapnllsnmrgelkqcsfnmttelrdkk
qkvyslfyrldvvqinsnkeyrlincntsaitqacpkvsfepipihycapagfailkckd
kkfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlnt
pvqinctrpnnntvksirigpgqafyyfgdiigdirmahcnvskatwnetlgkvvkqlrk
hfgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisnndsivlpcrikqi
inmwqrigqamyappiqgvircvsnitgliltrdggstnsttetfrpgggdmrdnwrsel
ykykvvkieplgvaptrckrrv

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6orpJ (J:)
mgwsciilflvatatgvhsevqllesgpglvkpsetlsltcavsggsisssnwwswirqp
pgkglewigniggssgntyynpslksrvtiskdtsknqfslklnsvtaadtavyycards
sgwpwdnrfdvwgagvlvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvt
vswnsgaltsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntxvdkrv
epkscdkthhhhhh

    Sequence, based on observed residues (ATOM records):
    >6orpJ (J:)
evqllesgpglvkpsetlsltcavsggsisssnwwswirqppgkglewigniggssgnty
ynpslksrvtiskdtsknqfslklnsvtaadtavyycardssgwpwdnrfdvwgagvlvt
vssa

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6orpK (K:)
mgwsciilflvatatgswaqsaltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlp
gtapklliyennkrpsglsdrfsgsqsgtsasltitglqsedeadyycqsydnslsaqvf
gggtrltvlgqpkaapsvtlfppsseelqankatlvclisdfypgavtvawkadsspvka
gvetttpskqsnnkyaassylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6orpK (K:)
saltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlpgtapklliyennkrpsglsd
rfsgsqsgtsasltitglqsedeadyycqsydnslsaqvfgggtrltvl

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6orpL (L:)
mgwsciilflvatatgswaqsaltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlp
gtapklliyennkrpsglsdrfsgsqsgtsasltitglqsedeadyycqsydnslsaqvf
gggtrltvlgqpkaapsvtlfppsseelqankatlvclisdfypgavtvawkadsspvka
gvetttpskqsnnkyaassylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6orpL (L:)
saltqppsvsgapgqrvtlsctgstsniggfyvqwyqqlpgtapklliyennkrpsglsd
rfsgsqsgtsasltitglqsedeadyycqsydnslsaqvfgggtrltvl