PDB entry 6j15

View 6j15 on RCSB PDB site
Description: Complex structure of GY-5 Fab and PD-1
Class: immune system
Keywords: Tumor immunotherapy, complex structure, FG loop, IMMUNE SYSTEM
Deposited on 2018-12-27, released 2019-11-06
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-07-02.
Experiment type: XRAY
Resolution: 2.6 Å
R-factor: N/A
AEROSPACI score: 0.25 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: GY-5 heavy chain Fab
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6J15 (Start-218)
    Domains in SCOPe 2.08: d6j15a1, d6j15a2
  • Chain 'B':
    Compound: GY-5 light chain Fab
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6J15 (0-215)
    Domains in SCOPe 2.08: d6j15b1, d6j15b2
  • Chain 'C':
    Compound: Programmed cell death protein 1
    Species: Homo sapiens [TaxId:9606]
    Gene: Pdcd1, Pd1
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q15116 (4-119)
      • expression tag (2-3)
    Domains in SCOPe 2.08: d6j15c1, d6j15c2
  • Chain 'D':
    Compound: Programmed cell death protein 1
    Species: Homo sapiens [TaxId:9606]
    Gene: Pdcd1, Pd1
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q15116 (4-119)
      • expression tag (0-3)
    Domains in SCOPe 2.08: d6j15d1, d6j15d2
  • Chain 'H':
    Compound: GY-5 heavy chain Fab
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6J15 (Start-218)
    Domains in SCOPe 2.08: d6j15h1, d6j15h2
  • Chain 'L':
    Compound: GY-5 light chain Fab
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6J15 (0-215)
    Domains in SCOPe 2.08: d6j15l1, d6j15l2
  • Heterogens: NAG

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6j15A (A:)
qvqlqqsgpelvrpgvsvkisckgsghtftdyalhwvrqshvkslewigvissyngitny
nqrfkgkatmtvdkssstaylelarltsedsaiyycsreewdvfyyfdywgqgttltvss
akttppsvyplapgsaaqtnsmvtlgclvkgyfpepvtvtwnsgslssgvhtfpavlqsd
lytlsssvtvpsstwpsetvtcnvahpasstkvdkkiet

    Sequence, based on observed residues (ATOM records): (download) 
    >6j15A (A:)
lqqsgpelvrpgvsvkisckgftdyalhwvrqshvkslewigvissyngitnynqrfkgk
atmtvdkssstaylelarltsedsaiyycsreewdvfyyfdywgqgttltvssakttpps
vyplapsmvtlgclvkgyfpepvtvtwnsgslssgvhtfpavlqsdlytlsssvtvpsst
wpsetvtcnvahpasstkvdkkiet

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6j15B (B:)
dimltqsplslpvslgdqasiscrssqgivhsdgntylewylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdfilkisrveaedlgvyycfqgshvpytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivknfnr

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6j15C (C:)
dgiqwnpptfspallvvtegdnatftcsfsntsesfvlnwyrmspsnqtdklaafpedrs
qpgqdcrfrvtqlpngrdfhmsvvrarrndsgtylcgaislapkaqikeslraelrvter

    Sequence, based on observed residues (ATOM records): (download) 
    >6j15C (C:)
iqwnpptfspallvvtegdnatftcsfsntsesfvlnwyrmspsnqtdklaafpecrfrv
tqlpngrdfhmsvvrarrndsgtylcgaislapkaqikeslraelrvter

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6j15D (D:)
dgiqwnpptfspallvvtegdnatftcsfsntsesfvlnwyrmspsnqtdklaafpedrs
qpgqdcrfrvtqlpngrdfhmsvvrarrndsgtylcgaislapkaqikeslraelrvter

    Sequence, based on observed residues (ATOM records): (download) 
    >6j15D (D:)
dgiqwnpptfspallvvtegdnatftcsfsntsesfvlnwyrmtdklaafpcrfrvtqlp
ngrdfhmsvvrarrndsgtylcgaislapkaqikeslraelrvter

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6j15H (H:)
qvqlqqsgpelvrpgvsvkisckgsghtftdyalhwvrqshvkslewigvissyngitny
nqrfkgkatmtvdkssstaylelarltsedsaiyycsreewdvfyyfdywgqgttltvss
akttppsvyplapgsaaqtnsmvtlgclvkgyfpepvtvtwnsgslssgvhtfpavlqsd
lytlsssvtvpsstwpsetvtcnvahpasstkvdkkiet

    Sequence, based on observed residues (ATOM records): (download) 
    >6j15H (H:)
lqqsgpelvrpgvsvkisckgdyalhwvrqshvkslewigvissyngitnynqrfkgkat
mtvdkssstaylelarltsedsaiyycsreewdvfyyfdywgqgttltvssakttppsvy
plapsmvtlgclvkgyfpepvtvtwnsgslssgvhtfpavlqsdlytlsssvtvpsstwp
setvtcnvahpasstkvdkkiet

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6j15L (L:)
dimltqsplslpvslgdqasiscrssqgivhsdgntylewylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdfilkisrveaedlgvyycfqgshvpytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivknfnr