PDB entry 6um5

View 6um5 on RCSB PDB site
Description: cryo-em structure of hiv-1 neutralizing antibody dh270 uca3 in complex with ch848 10.17dt env
Deposited on 2019-10-09, released 2019-12-18
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: EM
Resolution: 4.2 Å
R-factor: N/A
AEROSPACI score: 0.1 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: CH848 10.17 DT gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A1W6IPB2 (2-461)
      • expression tag (0-1)
      • conflict (101)
      • conflict (106)
      • conflict (160)
      • conflict (389)
      • conflict (446)
      • conflict (448)
      • conflict (452)
      • conflict (456-457)
  • Chain 'B':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S7 (0-152)
      • conflict (93)
  • Chain 'C':
    Compound: DH270 UCA3 Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (0-End)
  • Chain 'D':
    Compound: DH270 UCA3 Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (0-End)
  • Chain 'E':
    Compound: CH848 10.17 DT gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A1W6IPB2 (2-461)
      • expression tag (0-1)
      • conflict (101)
      • conflict (106)
      • conflict (160)
      • conflict (389)
      • conflict (446)
      • conflict (448)
      • conflict (452)
      • conflict (456-457)
  • Chain 'F':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S7 (0-152)
      • conflict (93)
  • Chain 'G':
    Compound: DH270 UCA3 Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (0-End)
  • Chain 'H':
    Compound: DH270 UCA3 Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (0-End)
  • Chain 'I':
    Compound: CH848 10.17 DT gp120
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A1W6IPB2 (2-461)
      • expression tag (0-1)
      • conflict (101)
      • conflict (106)
      • conflict (160)
      • conflict (389)
      • conflict (446)
      • conflict (448)
      • conflict (452)
      • conflict (456-457)
  • Chain 'J':
    Compound: envelope glycoprotein gp160
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q2N0S7 (0-152)
      • conflict (93)
  • Chain 'K':
    Compound: DH270 UCA3 Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (0-End)
  • Chain 'L':
    Compound: DH270 UCA3 Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6UM5 (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; same for both SEQRES and ATOM records:
    >6um5A (A:)
enlwvtvyygvpvwkeakttlfcasdarayekevhnvwathacvptdpspqelvlgnvte
nfnmwkndmvdqmhediislwdqslkpcvkltplcvtlicsdatvktgtveemkncsfnt
tteirdkekkeyalfykpdivplsetnntseyrlincntscvtqacpkvtfepipihyca
pagyailkcndetfngtgpcsnvstvqcthgirpvvstqlllngslaekeivirsenltn
nakiiivhlhtpveivctrpnnntrksvrigpgqtfyatgdiigdikqahcniseekwnd
tlqkvgielqkhfpnktikynqsaggdmeitthsfncggeffycntsnlfngtyngtyis
tnssanststitlqcrikqiinmwqgvgrcmyappiagnitcrsnitgllltrdggtnsn
etetfrpaggdmrdnwrselykykvvkieplgvaptrckrrv

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6um5B (B:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllraieaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6um5B (B:)
avgigavflgflgaagstmgaasmtltvqarnllstvwgikqlqarvlaverylrdqqll
giwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqq
ekneqdllald

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6um5C (C:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvsgastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtf
pavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6um5C (C:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvs

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6um5D (D:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvlgqpkgapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6um5D (D:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvl

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records:
    >6um5E (E:)
enlwvtvyygvpvwkeakttlfcasdarayekevhnvwathacvptdpspqelvlgnvte
nfnmwkndmvdqmhediislwdqslkpcvkltplcvtlicsdatvktgtveemkncsfnt
tteirdkekkeyalfykpdivplsetnntseyrlincntscvtqacpkvtfepipihyca
pagyailkcndetfngtgpcsnvstvqcthgirpvvstqlllngslaekeivirsenltn
nakiiivhlhtpveivctrpnnntrksvrigpgqtfyatgdiigdikqahcniseekwnd
tlqkvgielqkhfpnktikynqsaggdmeitthsfncggeffycntsnlfngtyngtyis
tnssanststitlqcrikqiinmwqgvgrcmyappiagnitcrsnitgllltrdggtnsn
etetfrpaggdmrdnwrselykykvvkieplgvaptrckrrv

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6um5F (F:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllraieaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6um5F (F:)
avgigavflgflgaagstmgaasmtltvqarnllstvwgikqlqarvlaverylrdqqll
giwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqq
ekneqdllald

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6um5G (G:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvsgastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtf
pavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6um5G (G:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvs

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6um5H (H:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvlgqpkgapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6um5H (H:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvl

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records:
    >6um5I (I:)
enlwvtvyygvpvwkeakttlfcasdarayekevhnvwathacvptdpspqelvlgnvte
nfnmwkndmvdqmhediislwdqslkpcvkltplcvtlicsdatvktgtveemkncsfnt
tteirdkekkeyalfykpdivplsetnntseyrlincntscvtqacpkvtfepipihyca
pagyailkcndetfngtgpcsnvstvqcthgirpvvstqlllngslaekeivirsenltn
nakiiivhlhtpveivctrpnnntrksvrigpgqtfyatgdiigdikqahcniseekwnd
tlqkvgielqkhfpnktikynqsaggdmeitthsfncggeffycntsnlfngtyngtyis
tnssanststitlqcrikqiinmwqgvgrcmyappiagnitcrsnitgllltrdggtnsn
etetfrpaggdmrdnwrselykykvvkieplgvaptrckrrv

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6um5J (J:)
avgigavflgflgaagstmgaasmtltvqarnllsgivqqqsnllraieaqqhllkltvw
gikqlqarvlaverylrdqqllgiwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqw
dkeisnytqiiyglleesqnqqekneqdllald

    Sequence, based on observed residues (ATOM records):
    >6um5J (J:)
avgigavflgflgaagstmgaasmtltvqarnllstvwgikqlqarvlaverylrdqqll
giwgcsgklicctnvpwnsswsnrnlseiwdnmtwlqwdkeisnytqiiyglleesqnqq
ekneqdllald

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6um5K (K:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvsgastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtf
pavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdkhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6um5K (K:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsistaymelsrlrsddtavyycarggwislyydssgypnfdywgqg
tlvtvs

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6um5L (L:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvlgqpkgapsvt
lfppsseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records):
    >6um5L (L:)
qsaltqpasvsgspgqsitisctgtssdvgsynlvswyqqhpgkapklmiyevskrpsgv
snrfsgsksgntasltisglqaedeadyyccsyagsstvifgggtkltvl