PDB entry 5m2i

View 5m2i on RCSB PDB site
Description: Structure of human Tumor Necrosis Factor (TNF) in complex with the Llama VHH1
Class: cytokine
Keywords: human Tumor Necrosis Factor (TNF) Llama VHH1, 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: 2.15 Å
R-factor: N/A
AEROSPACI score: 0.27 (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: d5m2ia_
  • 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: d5m2ib_
  • 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: d5m2ic_
  • Chain 'D':
    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: d5m2id_
  • Chain 'E':
    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: d5m2ie_
  • Chain 'F':
    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: d5m2if_
  • Chain 'G':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2ig_
  • Chain 'H':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2ih_
  • Chain 'I':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2ii_
  • Chain 'J':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2ij_
  • Chain 'K':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2ik_
  • Chain 'L':
    Compound: vhh1
    Species: LAMA GLAMA [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 5M2I (0-120)
    Domains in SCOPe 2.07: d5m2il_
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >5m2iA (A:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iA (A:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlekg
    drlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >5m2iB (B:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iB (B:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlekg
    drlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >5m2iC (C:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iC (C:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlekg
    drlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >5m2iD (D:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iD (D:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlekg
    drlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'E':
    Sequence, based on SEQRES records: (download)
    >5m2iE (E:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iE (E:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpaeakpwyepiylggvfqlekgdr
    lsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'F':
    Sequence, based on SEQRES records: (download)
    >5m2iF (F:)
    vrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliys
    qvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiyl
    ggvfqlekgdrlsaeinrpdyldfaesgqvyfgiial
    

    Sequence, based on observed residues (ATOM records): (download)
    >5m2iF (F:)
    dkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvpseglyliysqvlfkgqgc
    psthvllthtisriavsyqtkvnllsaikspcqretpegaeakpwyepiylggvfqlekg
    drlsaeinrpdyldfaesgqvyfgiial
    

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iG (G:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s
    

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iH (H:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s
    

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iI (I:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s
    

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iJ (J:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s
    

  • Chain 'K':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iK (K:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s
    

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download)
    >5m2iL (L:)
    vqlvesggglvqaggslslscsasgrslsnyymgwfrqapgkerellgniswrgyniyyk
    dsvkgrftisrddakntiylqmnrlkpedtavyycaasilplsddpgwntywgqgtqvtv
    s