PDB entry 6y54

View 6y54 on RCSB PDB site
Description: Crystal structure of a Neisseria meningitidis serogroup A capsular oligosaccharide bound to a functional Fab
Class: immune system
Keywords: antigen-antibody complex, epitope mapping, carbohydrate, glycan, IMMUNE SYSTEM
Deposited on 2020-02-24, released 2020-10-07
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-12-02, with a file datestamp of 2020-11-27.
Experiment type: XRAY
Resolution: 2.67 Å
R-factor: N/A
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'H':
    Compound: Fab A1.1 H chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54 (0-End)
    Domains in SCOPe 2.08: d6y54h1, d6y54h2
  • Chain 'L':
    Compound: Fab A1.1 L chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54 (0-End)
    Domains in SCOPe 2.08: d6y54l1, d6y54l2
  • Chain 'M':
    Compound: Fab A1.1 H chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54 (0-End)
    Domains in SCOPe 2.08: d6y54m1, d6y54m2
  • Chain 'N':
    Compound: Fab A1.1 L chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54 (0-End)
    Domains in SCOPe 2.08: d6y54n1, d6y54n2
  • Chain 'O':
    Compound: Fab A1.1 H chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54
    Domains in SCOPe 2.08: d6y54o1, d6y54o2
  • Chain 'P':
    Compound: Fab A1.1 L chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 6Y54 (0-End)
    Domains in SCOPe 2.08: d6y54p_
  • Heterogens: IOD, EDO, OOW, OA8, OAB, HOH

PDB Chain Sequences:

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6y54H (H:)
qvqlqqpgselvrpgasvklsckasgytftnywmhwvkqrpgqglewigniypgsgttny
nekfkrkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvtvssakttap
svyplapvcgdttgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlytlss
svtvtsstwpsqsitcnvahpasstkvdkkieprgptikphhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54H (H:)
qvqlqqpgselvrpgasvklsckasgytftnywmhwvkqrpgqglewigniypgsgttny
nekfkrkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvtvssakttap
svyplapvcgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlytlsssvtv
tsstwpsqsitcnvahpasstkvdkkieprg

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >6y54L (L:)
dvvmtqtplslpvslgdqasiscrssqsliysngntylhwylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivksfnrnec

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54L (L:)
dvvmtqtplslpvslgdqasiscrssqsliysngntylhwylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivksfnrn

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >6y54M (M:)
qvqlqqpgselvrpgasvklsckasgytftnywmhwvkqrpgqglewigniypgsgttny
nekfkrkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvtvssakttap
svyplapvcgdttgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlytlss
svtvtsstwpsqsitcnvahpasstkvdkkieprgptikphhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54M (M:)
qvqlqqpgselvrpgasvklsckasgytftnywmhwvkqrpgqglewigniypgsgttny
nekfkrkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvtvssakttap
svyplapvcggssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlytlsssvt
vtsstwpsqsitcnvahpasstkvdkkieprg

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >6y54N (N:)
dvvmtqtplslpvslgdqasiscrssqsliysngntylhwylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivksfnrnec

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54N (N:)
dvvmtqtplslpvslgdqasiscrssqsliysngntylhwylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivksfnrne

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >6y54O (O:)
qvqlqqpgselvrpgasvklsckasgytftnywmhwvkqrpgqglewigniypgsgttny
nekfkrkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvtvssakttap
svyplapvcgdttgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlytlss
svtvtsstwpsqsitcnvahpasstkvdkkieprgptikphhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54O (O:)
qlqqpgselvrpgasvklsckasgytftnywmhwvkqrglewigniypgsgttnynekfk
rkatltvdtssntaymelssltsedsavyfctvvrmdywgqgtsvt

  • Chain 'P':
    Sequence, based on SEQRES records: (download) 
    >6y54P (P:)
dvvmtqtplslpvslgdqasiscrssqsliysngntylhwylqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkleikradaaptv
sifppsseqltsggasvvcflnnfypkdinvkwkidgserqngvlnswtdqdskdstysm
sstltltkdeyerhnsytceathktstspivksfnrnec

    Sequence, based on observed residues (ATOM records): (download) 
    >6y54P (P:)
dvvmtqlslpvqasiscrssqsliysngntylhwylqkpqspklliykvsnrfsgvpdrf
sgsgsgtdftlkisrveaedlgvyfcsqnthipytfgggtkl