PDB entry 5m2m

View 5m2m on RCSB PDB site
Description: Complex between human TNF alpha and Llama VHH3
Class: cytokine
Keywords: human TNF alpha, Llama nanobody, cytokine
Deposited on 2016-10-13, released 2017-08-30
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-09-06, with a file datestamp of 2017-09-01.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.23 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2ma_
  • Chain 'B':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2mb_
  • Chain 'C':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2mc_
  • Chain 'D':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2md1, d5m2md2
  • Chain 'E':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2me1, d5m2me2
  • Chain 'F':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2mf1, d5m2mf2
  • Chain 'G':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2mg_
  • Chain 'H':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2mh1, d5m2mh2
  • Chain 'I':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2mi_
  • Chain 'J':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2mj1, d5m2mj2
  • Chain 'M':
    Compound: Tumor necrosis factor
    Species: Homo sapiens [TaxId:9606]
    Gene: TNF, TNFA, TNFSF2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5m2mm_
  • Chain 'N':
    Compound: Llama nanobody VHH3
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2M (Start-128)
    Domains in SCOPe 2.07: d5m2mn1, d5m2mn2
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >5m2mA (A:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mA (A:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcpshvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqle
    kgdrlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >5m2mB (B:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mB (B:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfql
    ekgdrlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >5m2mC (C:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mC (C:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcpthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqle
    kgdrlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >5m2mD (D:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mD (D:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss
    

  • Chain 'E':
    Sequence, based on SEQRES records: (download)
    >5m2mE (E:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mE (E:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss
    

  • Chain 'F':
    Sequence, based on SEQRES records: (download)
    >5m2mF (F:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mF (F:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss
    

  • Chain 'G':
    Sequence, based on SEQRES records: (download)
    >5m2mG (G:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mG (G:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcpthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqle
    kgdrlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'H':
    Sequence, based on SEQRES records: (download)
    >5m2mH (H:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mH (H:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss
    

  • Chain 'I':
    Sequence, based on SEQRES records: (download)
    >5m2mI (I:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mI (I:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcpshvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqle
    kgdrlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'J':
    Sequence, based on SEQRES records: (download)
    >5m2mJ (J:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mJ (J:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss
    

  • Chain 'M':
    Sequence, based on SEQRES records: (download)
    >5m2mM (M:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mM (M:)
    tpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkg
    qgcphvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlek
    gdrlsaeinrpdldfaesgqvyfgiial
    

  • Chain 'N':
    Sequence, based on SEQRES records: (download)
    >5m2mN (N:)
    qvqlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywss
    gntyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywg
    qgtqvtvss
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2mN (N:)
    qlqesggglvqpggslrlscaasgrtfsdhsgytytigwfrqapgkerefvariywssgn
    tyyadsvkgrfaisrdiakntvdltmnnlepedtavyycaardgiptsrsvesynywgqg
    tqvtvss