PDB entry 6fy1
View 6fy1 on RCSB PDB site
Description: Crystal structure of a V2p-reactive RV144 vaccine-like antibody, CAP228-16H, in complex with a scaffolded autologous V1V2
Class: immune system
Keywords: Fab, HIV-1 Envelope V1V2, IMMUNE SYSTEM
Deposited on
2018-03-10, released
2018-10-17
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: 3.13 Å
R-factor: N/A
AEROSPACI score: 0.12
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'G':
Compound: CAP228 Autologous Scaffolded V1V2
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: ENVELOPE
Database cross-references and differences (RAF-indexed):
- Chain 'H':
Compound: CAP228-16H Heavy Chain
Species: Homo sapiens [TaxId:9606]
Gene: IGHV5-51
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d6fy1h_ - Chain 'L':
Compound: CAP228-16H Light Chain
Species: Homo sapiens [TaxId:9606]
Gene: IGLV3-21
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d6fy1l1, d6fy1l2 - Chain 'X':
Compound: CAP228 Autologous Scaffolded V1V2
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: ENVELOPE
Database cross-references and differences (RAF-indexed):
- Chain 'Y':
Compound: CAP228-16H Heavy Chain
Species: Homo sapiens [TaxId:9606]
Gene: IGHV5-51
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d6fy1y_ - Chain 'Z':
Compound: CAP228-16H Light Chain
Species: Homo sapiens [TaxId:9606]
Gene: IGLV3-21
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d6fy1z1
PDB Chain Sequences:
- Chain 'G':
No sequence available.
- Chain 'H':
Sequence, based on SEQRES records: (download)
>6fy1H (H:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavl
qssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdkglevlfq
Sequence, based on observed residues (ATOM records): (download)
>6fy1H (H:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavl
qssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepksc
- Chain 'L':
Sequence, based on SEQRES records: (download)
>6fy1L (L:)
syeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiper
fsgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfp
psseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassyls
ltpeqwkshrsyscqvthegstvektvaptecs
Sequence, based on observed residues (ATOM records): (download)
>6fy1L (L:)
yeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiperf
sgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfpp
sseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassylsl
tpeqwkshrsyscqvthegstvektvaptec
- Chain 'X':
No sequence available.
- Chain 'Y':
Sequence, based on SEQRES records: (download)
>6fy1Y (Y:)
evqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetry
rasfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvt
vssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavl
qssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdkglevlfq
Sequence, based on observed residues (ATOM records): (download)
>6fy1Y (Y:)
vqlvqsgaevkkpgeslkisckgsgyrfpsswigwvrqvpgkglewmgiiypgdgetryr
asfqgqvtisadqssntaylqwsslkasdtamyycarhgrgvrevinafdiwgqgtmvtv
stkgpsvfplalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvvtvtq
tyicnvkvdkkv
- Chain 'Z':
Sequence, based on SEQRES records: (download)
>6fy1Z (Z:)
syeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiper
fsgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlsqpkaapsvtlfp
psseelqankatlvclisdfypgavtvawkadsspvkagvetttpskqsnnkyaassyls
ltpeqwkshrsyscqvthegstvektvaptecs
Sequence, based on observed residues (ATOM records): (download)
>6fy1Z (Z:)
yeltqppsvsvapgttatitcggvdigstlvhwyqqrpgqapllviyddsdrpsgiperf
sgsnsgnmatltisrveagdeadyycqvwhstsavifgggtkltvlqpkaapsvtlfpps
seelqankatlvclisdfypgavtagvetttpskqsnnkyaassylslcqvthegst