PDB entry 6u0n

View 6u0n on RCSB PDB site
Description: asymmetrically open conformational state (class ii) of hiv-1 env trimer bg505 sosip.664 in complex with scd4 and e51 fab
Deposited on 2019-08-14, released 2019-12-11
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: EM
Resolution: 3.5 Å
R-factor: N/A
AEROSPACI score: 0.1 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: envelope glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6 (0-End)
      • conflict (298)
      • conflict (466)
  • Chain 'B':
    Compound: envelope glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (298)
      • conflict (466)
  • Chain 'C':
    Compound: envelope glycoprotein gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (298)
      • conflict (466)
  • Chain 'D':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: E51 Fab heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N
  • Chain 'I':
    Compound: E51 Fab heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N
  • Chain 'J':
    Compound: E51 Fab light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N (0-End)
  • Chain 'L':
    Compound: E51 Fab light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N (0-End)
  • Chain 'P':
    Compound: E51 Fab heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N
  • Chain 'Q':
    Compound: E51 Fab light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6U0N (0-End)
  • Chain 'X':
    Compound: envelope glycoprotein gp41
    Species: HUMAN IMMUNODEFICIENCY VIRUS 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6 (0-End)
      • conflict (93)
  • Chain 'Y':
    Compound: envelope glycoprotein gp41
    Species: HUMAN IMMUNODEFICIENCY VIRUS 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (93)
  • Chain 'Z':
    Compound: envelope glycoprotein gp41
    Species: HUMAN IMMUNODEFICIENCY VIRUS 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (47)
      • conflict (93)
  • 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:
    >6u0nA (A:)
nlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvtee
fnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncsfn
mttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsfep
ipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmi
rsenitnnaknilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahcnv
skatwnetlgkvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglfns
twisntsvqgsnstgsndsitlpcrikqiinmwqrigqamyappiqgvircvsnitglil
trdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u0nA (A:)
nlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvtee
fnmwknnmveqmhtdiislwdqslkpcvkltplcvtrlincntsaitqacpkvsfepipi
hycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmirse
nitnnaknilvqfntpvqinctrpndirqahcnvskatwnetlgkvvkqlrkhfgnntii
rfanssggdlevtthsfncggeffycntsglfnstwisdsitlpcrikqiinmwqrigqa
myappiqgvircvsnitgliltrdggsttetfrpgggdmrdnwrselykykvvkieplgv
aptrckr

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6u0nB (B:)
nlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvtee
fnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncsfn
mttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsfep
ipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmi
rsenitnnaknilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahcnv
skatwnetlgkvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglfns
twisntsvqgsnstgsndsitlpcrikqiinmwqrigqamyappiqgvircvsnitglil
trdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u0nB (B:)
wvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvteefn
mwknnmveqmhtdiislwdqslkpcvkltplcvincntsaitqacpkvsfepipihycap
agfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmirsenitnn
aknilvqfntpvqinctrpnnntdirqahcnvskatwnetlgkvvkqlrkhfgnntiirf
anssggdlevtthsfncggeffycntsglfnstwisdsitlpcrikqiinmwqrigqamy
appiqgvircvsnitgliltrdgnsttetfrpgggdmrdnwrselykykvvkieplgvap
trck

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6u0nC (C:)
nlwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvtee
fnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncsfn
mttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsfep
ipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmi
rsenitnnaknilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahcnv
skatwnetlgkvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglfns
twisntsvqgsnstgsndsitlpcrikqiinmwqrigqamyappiqgvircvsnitglil
trdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgrrrrrr

    Sequence, based on observed residues (ATOM records):
    >6u0nC (C:)
lwvtvyygvpvwkdaettlfcasdakayetekhnvwathacvptdpnpqeihlenvteef
nmwknnmveqmhtdiislwdqslkpcvkltplcvincntsaitqacpkvsfepipihyca
pagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmirsenitn
naknilvqfntpvqinctrpnndirqahcnvskatwnetlgkvvkqlrkhfgnntiirfa
nssggdlevtthsfncggeffycntsglfnstwisdsitlpcrikqiinmwqrigqamya
ppiqgvircvsnitgliltrdggsttetfrpgggdmrdnwrselykykvvkieplgvapt
rck

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6u0nD (D:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltles
ppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlafq
kaidgrhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6u0nD (D:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6u0nE (E:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltles
ppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlafq
kaidgrhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6u0nE (E:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6u0nF (F:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltles
ppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlafq
kaidgrhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6u0nF (F:)
kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
lwdqgnfpliiknlkiedsdtyicevedqkeevqllv

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6u0nH (H:)
evqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshy
aqkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyyd
mdvwgqgttvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgal
tsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepk

    Sequence, based on observed residues (ATOM records):
    >6u0nH (H:)
vqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshya
qkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyydm
dvwgqgttvtvs

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6u0nI (I:)
evqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshy
aqkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyyd
mdvwgqgttvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgal
tsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepk

    Sequence, based on observed residues (ATOM records):
    >6u0nI (I:)
vqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshya
qkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyydm
dvwgqgttvtvs

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6u0nJ (J:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvlgqpkaapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvapt

    Sequence, based on observed residues (ATOM records):
    >6u0nJ (J:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvl

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6u0nL (L:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvlgqpkaapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvapt

    Sequence, based on observed residues (ATOM records):
    >6u0nL (L:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvl

  • Chain 'P':
    Sequence, based on SEQRES records:
    >6u0nP (P:)
evqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshy
aqkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyyd
mdvwgqgttvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgal
tsgvhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepk

    Sequence, based on observed residues (ATOM records):
    >6u0nP (P:)
vqlvqsgaevnkpgssvkvscqasgatlnshafswvrqapgqglewmagiipifgsshya
qkfrgrvtisadestrtvylhlrglrsddtavyycasnsiagvaaagdyadydggyyydm
dvwgqgttvtvs

  • Chain 'Q':
    Sequence, based on SEQRES records:
    >6u0nQ (Q:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvlgqpkaapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvapt

    Sequence, based on observed residues (ATOM records):
    >6u0nQ (Q:)
qsiltqppsvsaapgqkvtiscsgsssnignndvswyqqfpgtvpklviyennerpsgip
drfsgsksgtsatlgitglqtgdeadyycgtwdsslsavvfgggskvtvl

  • Chain 'X':
    Sequence, based on SEQRES records:
    >6u0nX (X:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllrapeaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6u0nX (X:)
avgigavflgflgaagstmgaasmtltvqarnllseaqqhllkltvwgikqlqarvlave
rylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyg
lleesqnqq

  • Chain 'Y':
    Sequence, based on SEQRES records:
    >6u0nY (Y:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllrapeaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6u0nY (Y:)
gflgaagstmgaasmtltvqarnleaqqhllkltvwgikqlqarvlaverylrdqqllgi
wgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqqek
neqdl

  • Chain 'Z':
    Sequence, based on SEQRES records:
    >6u0nZ (Z:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllrapeaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6u0nZ (Z:)
vflgflgaagstmgaasmtltvqrapeaqqhllkltvwgikqlqarvlaverylrdqqll
giwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqq
ekne