PDB entry 6fy2

View 6fy2 on RCSB PDB site
Description: Crystal structure of a V2p-reactive RV144 vaccine-like antibody, CAP228-16H, in complex with a heterologous CAP225 V1V2
Class: immune system
Keywords: Fab, HIV-1 Envelope V1V2, IMMUNE SYSTEM
Deposited on 2018-03-10, released 2018-09-05
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-11-07, with a file datestamp of 2018-11-02.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.25 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'H':
    Compound: CAP228-16H Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Gene: IGHV5-51
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2 (0-End)
    Domains in SCOPe 2.08: d6fy2h_
  • Chain 'L':
    Compound: CAP228-16H Light Chain
    Species: Homo sapiens [TaxId:9606]
    Gene: IGLV3-21
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2
    Domains in SCOPe 2.08: d6fy2l1, d6fy2l2
  • Chain 'P':
    Compound: CAP225 Scaffolded V1V2
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2
  • Chain 'X':
    Compound: CAP228-16H Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Gene: IGHV5-51
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2 (0-End)
    Domains in SCOPe 2.08: d6fy2x_
  • Chain 'Y':
    Compound: CAP228-16H Light Chain
    Species: Homo sapiens [TaxId:9606]
    Gene: IGLV3-21
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2
    Domains in SCOPe 2.08: d6fy2y1, d6fy2y2
  • Chain 'Z':
    Compound: CAP225 Scaffolded V1V2
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: ENV
    Database cross-references and differences (RAF-indexed):
    • PDB 6FY2
  • Heterogens: SO4, GOL, HOH

PDB Chain Sequences:

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6fy2H (H:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavl
qssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdkglevlfq

    Sequence, based on observed residues (ATOM records): (download) 
    >6fy2H (H:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsgtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssgly
slssvvtvpssslgtqtyicnvnhkpsntkvdkkvepks

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >6fy2L (L:)
syeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiper
fsgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfp
psseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassyls
ltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records): (download) 
    >6fy2L (L:)
yeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiperf
sgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfpp
sseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassylsl
tpeqwkshrsyscqvthegstvektvapt

  • Chain 'P':
    No sequence available.

  • Chain 'X':
    Sequence, based on SEQRES records: (download) 
    >6fy2X (X:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavl
qssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdkglevlfq

    Sequence, based on observed residues (ATOM records): (download) 
    >6fy2X (X:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsgtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssgly
slssvvtvpssslgtqtyicnvnhkpsntkvdkkvepks

  • Chain 'Y':
    Sequence, based on SEQRES records: (download) 
    >6fy2Y (Y:)
syeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiper
fsgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfp
psseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassyls
ltpeqwkshrsyscqvthegstvektvaptecs

    Sequence, based on observed residues (ATOM records): (download) 
    >6fy2Y (Y:)
yeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiperf
sgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfpp
sseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassylsl
tpeqwkshrsyscqvthegstvektvapt

  • Chain 'Z':
    No sequence available.