PDB entry 4v1d

View 4v1d on RCSB PDB site
Description: Ternary complex among two human derived single chain antibody fragments and Cn2 toxin from scorpion Centruroides noxius.
Class: toxin/immune system
Keywords: toxin-immune system complex, human scfv, scorpion venom neutralization, directed evolution, cn2 toxin.
Deposited on 2014-09-25, released 2015-10-07
The last revision prior to the SCOPe 2.08 freeze date was dated 2016-02-03, with a file datestamp of 2016-01-29.
Experiment type: XRAY
Resolution: 3.1 Å
R-factor: N/A
AEROSPACI score: 0.13 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: single chain antibody fragment lr, heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4V1D (0-116)
    Domains in SCOPe 2.08: d4v1da_
  • Chain 'B':
    Compound: single chain antibody fragment lr, light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4V1D
    Domains in SCOPe 2.08: d4v1db1, d4v1db2
  • Chain 'C':
    Compound: beta-mammal toxin cn2
    Species: Centruroides noxius [TaxId:6878]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4v1dc_
  • Chain 'D':
    Compound: single chain antibody fragment ru1, heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4V1D (0-123)
    Domains in SCOPe 2.08: d4v1dd_
  • Chain 'E':
    Compound: single chain antibody fragment ru1, light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4V1D
    Domains in SCOPe 2.08: d4v1de1, d4v1de2
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4v1dA (A:)
evqlvesggglvqpggslrlsctgsgftfdnyamhwlrqvpgeglewvsgisrssgdidy
adsvkgrftisrddakktlslqmnslraedtavyycarggfgsfdtwgqgtmvtvss

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >4v1dB (B:)
ggggsggggsggggseivltqspatlsvspgeratlscrasqsvrsylawyqqkpgqapr
llfsdasnratgiparftgsgsgtdftltisslepedfaiyycqqyrysprtfgqgtkve
ikraaaeqkliseedlngaahhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >4v1dB (B:)
seivltqspatlsvspgeratlscrasqsvrsylawyqqkpgqaprllfsdasnratgip
arftgsgsgtdftltisslepedfaiyycqqyrysprtfgqgtkveikr

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4v1dC (C:)
kegylvdkntgckyeclklgdndyclreckqqygkgaggycyafacwcthlyeqaivwpl
pnkrcs

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4v1dD (D:)
qvnlresggglvqpggslrlscaasgfsfgsygmhwvrqapgkglewvavisygggnkyy
adsvkgrftisrdnskntlylqmnslraedtavyycakdardcllcadwhfdlwgrgtlv
tvss

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >4v1dE (E:)
ggggsggggsggggsnfmltqphsasgtpgqrvtiscsgsssnigsntvnwyrhlpgsap
elligshnqrpsgvpdrfsasksdtsaslaisglqsedeadyycaawddsligyvfgtgt
kltvlgaaaeqkliseedlngaahhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >4v1dE (E:)
snfmltqphsasgtpgqrvtiscsgsssnigsntvnwyrhlpgsapelligshnqrpsgv
pdrfsasksdtsaslaisglqsedeadyycaawddsligyvfgtgtkltvlg