PDB entry 3ubj

View 3ubj on RCSB PDB site
Description: Influenza hemagglutinin from the 2009 pandemic in complex with ligand LSTa
Class: viral protein/immune system
Keywords: viral envelope protein, hemagglutinin, viral fusion protein, VIRAL PROTEIN-IMMUNE SYSTEM complex
Deposited on 2011-10-24, released 2011-11-23
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: XRAY
Resolution: 2.25 Å
R-factor: N/A
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubja_
  • Chain 'B':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjb_
  • Chain 'C':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubjc_
  • Chain 'D':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjd_
  • Chain 'E':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • expression tag (0-1)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubje1, d3ubje2
  • Chain 'F':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjf_
  • Chain 'G':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubjg_
  • Chain 'H':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjh_
  • Chain 'I':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubji_
  • Chain 'J':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjj_
  • Chain 'K':
    Compound: hemagglutinin HA1
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3W5S1 (2-End)
      • engineered mutation (203)
      • engineered mutation (218)
    Domains in SCOPe 2.08: d3ubjk_
  • Chain 'L':
    Compound: hemagglutinin HA2
    Species: Influenza a virus [TaxId:641501]
    Gene: HA, hemagglutinin
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ubjl_
  • Heterogens: NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3ubjA (A:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjA (A:)
dtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcniagw
ilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpkt
sswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgih
hpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdki
tfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpiti
gkcpkyvkstklrlatglrnips

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3ubjB (B:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjB (B:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeakln

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3ubjC (C:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjC (C:)
dtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcniagw
ilgnpecesasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpktssw
pnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgihhps
tsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdkitfe
atgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpitigkc
pkyvkstklrlatglrnips

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3ubjD (D:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjD (D:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnr

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3ubjE (E:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjE (E:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpecsswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpktsswp
nhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgihhpst
sadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdkitfea
tgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpitigkcp
kyvkstklrlatglrnips

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3ubjF (F:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjF (F:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnr

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >3ubjG (G:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjG (G:)
dtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcniagw
ilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpkt
sswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgih
hpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdki
tfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpiti
gkcpkyvkstklrlatglrnips

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >3ubjH (H:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjH (H:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnree

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >3ubjI (I:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjI (I:)
dtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcniagw
ilgnpecesasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpktssw
pnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgihhps
tsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdkitfe
atgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpitigkc
pkyvkstklrlatglrnips

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >3ubjJ (J:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjJ (J:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnr

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >3ubjK (K:)
pgdtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcnia
gwilgnpeceslstasswsyivetpssdngtcypgdfidyeelreqlssvssferfeifp
ktsswpnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwg
ihhpstsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgd
kitfeatgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpi
tigkcpkyvkstklrlatglrnipsiqsr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjK (K:)
dtlcigyhannstdtvdtvleknvtvthsvnlledkhngklcklrgvaplhlgkcniagw
ilgnpeceslsswsyivetpssdngtcypgdfidyeelreqlssvssferfeifpktssw
pnhdsnkgvtaacphagaksfyknliwlvkkgnsypklsksyindkgkevlvlwgihhps
tsadqqslyqnadtyvfvcssryskkfkpeiaicpkvrdqegrmnyywtlvepgdkitfe
atgnlvvpryafamernagsgiiisdtpvhdcnttcqtpkgaintslpfqnihpitigkc
pkyvkstklrlatglrnips

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >3ubjL (L:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeaklnreeidsgr

    Sequence, based on observed residues (ATOM records): (download) 
    >3ubjL (L:)
glfgaiagfieggwtgmvdgwygyhhqneqgsgyaadlkstqnaideitnkvnsviekmn
tqftavgkefnhlekrienlnkkvddgfldiwtynaellvllenertldyhdsnvknlye
kvrsqlknnakeigngcfefyhkcdntcmesvkngtydypkyseeakln