PDB entry 6nfc

View 6nfc on RCSB PDB site
Description: bg505 md64 n332-gt5 sosip trimer in complex with bg18-like precursor hmp42 fragmentantigen binding and base-binding rm20a3 fragment antigen binding
Deposited on 2018-12-19, released 2019-11-06
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: EM
Resolution: 3.43 Å
R-factor: N/A
AEROSPACI score: 0.2 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'B':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'C':
    Compound: base-binding RM20A3 fragment antigen binding heavy chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (0-End)
  • Chain 'D':
    Compound: base-binding RM20A3 fragment antigen binding light chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (0-End)
  • Chain 'E':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'F':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'G':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'H':
    Compound: BG18-like precursor HMP42 fragment antigen binding heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'I':
    Compound: HIV-1 Env BG505 MD64 N332-GT5 SOSIP gp41
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC
  • Chain 'J':
    Compound: base-binding RM20A3 fragment antigen binding heavy chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (0-End)
  • Chain 'K':
    Compound: base-binding RM20A3 fragment antigen binding heavy chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (0-End)
  • Chain 'L':
    Compound: BG18-like precursor HMP42 fragment antigen binding light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (Start-106)
  • Chain 'M':
    Compound: base-binding RM20A3 fragment antigen binding light chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (0-End)
  • Chain 'N':
    Compound: base-binding RM20A3 fragment antigen binding light chain
    Species: MACACA MULATTA [TaxId:9544]
    Database cross-references and differences (RAF-indexed):
    • PDB 6NFC (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 'A':
    Sequence, based on SEQRES records:
    >6nfcA (A:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpsnntvksirigpgqafyyfgdvlghvrmahc
niskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndslilpcwikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6nfcA (A:)
nlwvtvyygvpvwkdaettlfcasdhnvwathacvptdpnpqeihlenvteefnmwknnm
veqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncsfnmttelrdk
kqkvyslfyrldvvqinkeyrlincntsaitqacpkvsfepipihycapagfailkckdk
kfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlntp
vqinctrpsnntvksirigpgqafyyfgdvlghvrmahcniskatwnetlgkvvkqlrkh
fgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisdslilpcwikqiinm
wqrigqamyappiqgvircvsnitgliltrdttetfrpgggdmrdnwrselykykvvkie
plgvaptrckrr

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6nfcB (B:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllaldgtkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6nfcB (B:)
lgflgaagstmgaasmtltvqarnllsgikqlqarvlavehylrdqqllgiwgcsgklic
ctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdllald

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6nfcC (C:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtvss

    Sequence, based on observed residues (ATOM records):
    >6nfcC (C:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtv

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6nfcD (D:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvlgqpkasptvtl
fppsseel

    Sequence, based on observed residues (ATOM records):
    >6nfcD (D:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvl

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6nfcE (E:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpsnntvksirigpgqafyyfgdvlghvrmahc
niskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndslilpcwikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6nfcE (E:)
nlwvtvyygvpvwkdaettlfcasdhnvwathacvptdpnpqeihlenvteefnmwknnm
veqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncsfnmttelrdk
kqkvyslfyrldvvqinkeyrlincntsaitqacpkvsfepipihycapagfailkckdk
kfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlntp
vqinctrpsnntvksirigpgqafyyfgdvlghvrmahcniskatwnetlgkvvkqlrkh
fgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisdslilpcwikqiinm
wqrigqamyappiqgvircvsnitgliltrdttetfrpgggdmrdnwrselykykvvkie
plgvaptrckrr

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6nfcF (F:)
aenlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
iirsenitnnaknilvqlntpvqinctrpsnntvksirigpgqafyyfgdvlghvrmahc
niskatwnetlgkvvkqlrkhfgnntiirfaqssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndslilpcwikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrr
r

    Sequence, based on observed residues (ATOM records):
    >6nfcF (F:)
nlwvtvyygvpvwkdaettlfcasdhnvwathacvptdpnpqeihlenvteefnmwknnm
veqmhediislwdqslkpcvkltplcvtlqctnyapklrsmmrgeikncsfnmttelrdk
kqkvyslfyrldvvqinkeyrlincntsaitqacpkvsfepipihycapagfailkckdk
kfngtgpcpsvstvqcthgikpvvstqlllngslaeeeviirsenitnnaknilvqlntp
vqinctrpsnntvksirigpgqafyyfgdvlghvrmahcniskatwnetlgkvvkqlrkh
fgnntiirfaqssggdlevtthsfncggeffycntsglfnstwisdslilpcwikqiinm
wqrigqamyappiqgvircvsnitgliltrdttetfrpgggdmrdnwrselykykvvkie
plgvaptrckrr

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6nfcG (G:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllaldgtkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6nfcG (G:)
lgflgaagstmgaasmtltvqarnllsgikqlqarvlavehylrdqqllgiwgcsgklic
ctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdllald

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6nfcH (H:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycardrgrewelesyyyyyymdvwgk
gttvtvss

    Sequence, based on observed residues (ATOM records):
    >6nfcH (H:)
vqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtnya
qkfqgrvtmtrdtsistaymelsrlrsddtavyycardrgrewelesyyyyyymdvwgkg
ttvtvs

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6nfcI (I:)
avgigavslgflgaagstmgaasmtltvqarnllsgivqqqsnllrapepqqhllkdthw
gikqlqarvlavehylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllaldgtkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6nfcI (I:)
lgflgaagstmgaasmtltvqarnllsgikqlqarvlavehylrdqqllgiwgcsgklic
ctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqekneqdllald

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6nfcJ (J:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtvss

    Sequence, based on observed residues (ATOM records):
    >6nfcJ (J:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtv

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6nfcK (K:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtvss

    Sequence, based on observed residues (ATOM records):
    >6nfcK (K:)
evqlvetggglvqpggslklscrasgytfssfamswvrqapgkglewvslindrggltfy
vdsvkgrftisrdnskntlslqmhslrdgdtavyycatggmssalqsskyyfdfwgqgal
vtv

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6nfcL (L:)
syeltqppsvsvspgqtaritcsgdalpkqyaywyqqkpgqapvlviykdserpsgiper
fsgsssgttvtltisgvqaedeadyycqsadssgtyvvfgggtkltvl

    Sequence, based on observed residues (ATOM records):
    >6nfcL (L:)
eltqppsvsvspgqtaritcsgdalpkqyaywyqqkpgqapvlviykdserpsgiperfs
gsssgttvtltisgvqaedeadyycqsadssgtyvvfgggtkltvl

  • Chain 'M':
    Sequence, based on SEQRES records:
    >6nfcM (M:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvlgqpkasptvtl
fppsseel

    Sequence, based on observed residues (ATOM records):
    >6nfcM (M:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvl

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6nfcN (N:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvlgqpkasptvtl
fppsseel

    Sequence, based on observed residues (ATOM records):
    >6nfcN (N:)
altqppsvsgspgqsvtisctgtssdigsynyvswyqqhpgkapklmiydvtqrpsgvsd
rfsgsksgntasltisglqaddeadyycsayagrqtfyifgggtrltvl