PDB entry 6ocd

View 6ocd on RCSB PDB site
Description: Ricin A chain bound to VHH antibody V6D4
Class: toxin
Keywords: Toxin
Deposited on 2019-03-22, released 2020-04-01
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-10-14, with a file datestamp of 2020-10-09.
Experiment type: XRAY
Resolution: 2.1 Å
R-factor: N/A
AEROSPACI score: 0.38 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: ricin a chain
    Species: Ricinus communis [TaxId:3988]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ocda_
  • Chain 'B':
    Compound: VHH antibody V6D4
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OCD (0-End)
    Domains in SCOPe 2.08: d6ocdb_
  • Chain 'C':
    Compound: ricin a chain
    Species: Ricinus communis [TaxId:3988]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ocdc_
  • Chain 'D':
    Compound: VHH antibody V6D4
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OCD (Start-122)
    Domains in SCOPe 2.08: d6ocdd_
  • Heterogens: ZN, CL, IMD, EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6ocdA (A:)
qypiinfttagatvqsytnfiravrgrlttgadvrheipvlpnrvglpinqrfilvelsn
haelsvtlaldvtnayvvgyragnsayffhpdnqedaeaithlftdvqnrytfafggnyd
rleqlagnlrenielgngpleeaisalyyystggtqlptlarsfiiciqmiseaarfqyi
egemrtrirynrrsapdpsvitlenswgrlstaiqesnqgafaspiqlqrrngskfsvyd
vsilipiialmvyrcapp

    Sequence, based on observed residues (ATOM records): (download) 
    >6ocdA (A:)
qypiinfttagatvqsytnfiravrgrlttgadvrheipvlpnrvglpinqrfilvelsn
haelsvtlaldvtnayvvgyragnsayffhpdnqedaeaithlftdvqnrytfafggnyd
rleqlagnlrenielgngpleeaisalyyystggtqlptlarsfiiciqmiseaarfqyi
egemrtrirynrrsapdpsvitlenswgrlstaiqesnqgafaspiqlqrrngskfsvyd
vsilipiialmvyrcap

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6ocdB (B:)
qlvetggglvqsggslrlscaasgftldnynigwfrqapgkeyggvscisssdgstyyad
svkgrftisrdnakntvylqmnnlkpedtdvyycaatkygsscpirpydywgqgtqvtvs
sah

    Sequence, based on observed residues (ATOM records): (download) 
    >6ocdB (B:)
qlvetgvqsggslrlscaasgftldnynigwfrqapgkeyggvscissdgstyyadsvkg
rftisrdnakntvylqmnnlkpedtdvyycaatkygsscpirpydywgqgtqvt

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6ocdC (C:)
qypiinfttagatvqsytnfiravrgrlttgadvrheipvlpnrvglpinqrfilvelsn
haelsvtlaldvtnayvvgyragnsayffhpdnqedaeaithlftdvqnrytfafggnyd
rleqlagnlrenielgngpleeaisalyyystggtqlptlarsfiiciqmiseaarfqyi
egemrtrirynrrsapdpsvitlenswgrlstaiqesnqgafaspiqlqrrngskfsvyd
vsilipiialmvyrcapp

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6ocdD (D:)
qlvetggglvqsggslrlscaasgftldnynigwfrqapgkeyggvscisssdgstyyad
svkgrftisrdnakntvylqmnnlkpedtdvyycaatkygsscpirpydywgqgtqvtvs
sah

    Sequence, based on observed residues (ATOM records): (download) 
    >6ocdD (D:)
lvetggglvqsggslrlscaasgftldnynigwfrqapgkeyggvscisssdgstyyads
vkgrftisrdnakntvylqmnnlkpedtdvyycaatkygsscpirpydywgqgtqvtvss
h