PDB entry 6utk

View 6utk on RCSB PDB site
Description: crystal structure of 438-b11 fab in complex with an uncleaved prefusion optimized (ufo) soluble bg505 trimer and fab 35o22 at 3.80 angstrom
Deposited on 2019-10-29, released 2020-09-23
The last revision was dated 2020-10-07, with a file datestamp of 2020-10-02.
Experiment type: XRAY
Resolution: 3.8 Å
R-factor: N/A
AEROSPACI score: 0.13 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'D':
    Compound: 35O22 Fab Heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UTK (0-End)
  • Chain 'E':
    Compound: 35O22 Fab Light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UTK
  • Chain 'G':
    Compound: envelope glycoprotein gp120
    Species: HUMAN IMMUNODEFICIENCY VIRUS 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S6
      • conflict (31)
      • conflict (300)
      • conflict (468)
  • Chain 'H':
    Compound: B11 Fab Heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UTK (0-232)
  • Chain 'L':
    Compound: B11 Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UTK (0-212)
  • Chain 'T':
    Compound: envelope glycoprotein gp41
    Species: HUMAN IMMUNODEFICIENCY VIRUS 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S9 (Start-35)
      • linker (35)
      • linker (35)
      • linker (35)
      • linker (35)
      • linker (35)
      • linker (35)
    • Uniprot Q2N0S9 (44-139)
      • conflict (80)
  • Heterogens: BMA, MAN, 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 'D':
    Sequence, based on SEQRES records:
    >6utkD (D:)
egqlvqsgaelkkpgasvkiscktsgyrfnfyhinwirqtagrgpewmgwispysgdknl
apafqdrvimttdtevpvtsftstgaaymeirnlkfddtgtyfcakgllrdgsstwlpyl
wgqgtlltvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsg
vhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkglev
lfq

    Sequence, based on observed residues (ATOM records):
    >6utkD (D:)
egqlvqsgaelkkpgasvkiscktsgyrfnfyhinwirqtagrgpewmgwispysgdknl
apafqdrvimttdtevpvtsftstgaaymeirnlkfddtgtyfcakgllrdgsstwlpyl
wgqgtlltvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsg
vhtfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkglev

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

    Sequence, based on observed residues (ATOM records):
    >6utkE (E:)
svltqsasvsgslgqsvtisctgpnsvccshksiswyqwppgraptliiyednerapgis
prfsgyksywsayltisdlrpedettyyccsythnsgcvfgtgtkvsvlgqskanpsvtl
fppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassy
lsltpeqwkshrsyscqvthegstvektvapte

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6utkG (G:)
aenlwvtvyygvpvwkdaettlfcasdakaydtekhnvwathacvptdpnpqeihlenvt
eefnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncs
fnmttelrdkkqkvyslfyrldvvqinenqgnrsnnsnkeyrlincntsaitqacpkvsf
epipihycapagfailkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeev
mirsenitnnaknilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahc
nvskatwnetlgkvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglf
nstwisntsvqgsnstgsndsitlpcrikqiinmwqrigqamyappiqgvircvsnitgl
iltrdggstnsttetfrpgggdmrdnwrselykykvvkieplgvaptrckrrvvgggggs
ggggs

    Sequence, based on observed residues (ATOM records):
    >6utkG (G:)
nlwvtvyygvpvwkdaettlfcasdakaydtekhnvwathacvptdpnpqeihlenvtee
fnmwknnmveqmhtdiislwdqslkpcvkltplcvtlqctnvtnnitddmrgelkncsfn
mttelrdkkqkvyslfyrldvvqinnkeyrlincntsaitqacpkvsfepipihycapag
failkckdkkfngtgpcpsvstvqcthgikpvvstqlllngslaeeevmirsenitnnak
nilvqfntpvqinctrpnnntrksirigpgqafyatgdiigdirqahcnvskatwnetlg
kvvkqlrkhfgnntiirfanssggdlevtthsfncggeffycntsglfnstwisntsvsn
dsitlpcrikqiinmwqrigqamyappiqgvircvsnitgliltrdggstnsttetfrpg
ggdmrdnwrselykykvvkieplgvaptrckrr

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6utkH (H:)
qvqlvqsgaevrkpgssvtisckpvggtftnfaihwvrqapgqglewvggrvpvvgiyky
gkkfhdrlrlyeddpmktvflelrsltsddtgvyyctrwrgcgmcpydtssyyndasdvw
gpgtkvivsaastkgpsvfplapsskxxsggtaalgclvkdyfpepvtvswnsgaltsgv
htfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepksc

    Sequence, based on observed residues (ATOM records):
    >6utkH (H:)
qvqlvqsgaevrkpgssvtisckpvggtftnfaihwvrqapgqglewvggrvpvvgiyky
gkkfhdrlrlyeddpmktvflelrsltsddtgvyyctrwrgcgmcpydtssyyndasdvw
gpgtkvivsaastkgpsvfplapssksggtaalgclvkdyfpepvtvswnsgaltsgvht
fpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepksc

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records:
    >6utkL (L:)
eivltqspvtlslssgetgtlscrasqnissswiawyqqrrgqvprllisaasaraagip
drftgrgsgtdftltitrlepedfgvyscqyyggsfftfgpgtqvdvkrtvaapsvfifp
psdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstl
tlskadyekhkvyacevthqglsspvtksfnrg

  • Chain 'T':
    Sequence, based on SEQRES records:
    >6utkT (T:)
avgigavflgflgaagstmgaasmtltvqarnllsgnpdwlpdmtvwgikqlqarvlave
rylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyg
lleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6utkT (T:)
vflgflgaagstmgaasmtltvqarnllsgnpdwlpdmtvwgikqlqarvlaverylrdq
qllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesq
nqqekneqdllald