PDB entry 5vl3

View 5vl3 on RCSB PDB site
Description: CD22 d1-d3 in complex with therapeutic Fab Epratuzumab
Class: immune system
Keywords: therapeutic antibody, Siglec, B cell, Fab, IMMUNE SYSTEM
Deposited on 2017-04-24, released 2017-10-11
The last revision prior to the SCOPe 2.06 freeze date was dated 2017-10-11, with a file datestamp of 2017-10-06.
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: Epratuzumab Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-113)
    • Uniprot S6B291 (114-End)
  • Chain 'B':
    Compound: Epratuzumab Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-107)
    • Uniprot Q8TCD0 (108-End)
    Domains in SCOPe 2.06: d5vl3b1, d5vl3b2
  • Chain 'C':
    Compound: Epratuzumab Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-113)
    • Uniprot S6B291 (114-End)
  • Chain 'D':
    Compound: Epratuzumab Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-107)
    • Uniprot Q8TCD0 (108-End)
    Domains in SCOPe 2.06: d5vl3d1, d5vl3d2
  • Chain 'E':
    Compound: Epratuzumab Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-113)
    • Uniprot S6B291 (114-End)
  • Chain 'F':
    Compound: Epratuzumab Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-107)
    • Uniprot Q8TCD0 (108-End)
    Domains in SCOPe 2.06: d5vl3f1, d5vl3f2
  • Chain 'H':
    Compound: Epratuzumab Fab Heavy Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-113)
    • Uniprot S6B291 (114-End)
  • Chain 'L':
    Compound: Epratuzumab Fab Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VL3 (Start-107)
    • Uniprot Q8TCD0 (108-End)
    Domains in SCOPe 2.06: d5vl3l1, d5vl3l2
  • Chain 'Q':
    Compound: B-cell receptor CD22
    Species: Homo sapiens [TaxId:9606]
    Gene: CD22, SIGLEC2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20273 (4-End)
      • engineered mutation (49)
      • engineered mutation (94)
      • engineered mutation (117)
      • engineered mutation (146)
  • Chain 'R':
    Compound: B-cell receptor CD22
    Species: Homo sapiens [TaxId:9606]
    Gene: CD22, SIGLEC2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20273
      • engineered mutation (49)
      • engineered mutation (94)
      • engineered mutation (117)
      • engineered mutation (146)
  • Chain 'S':
    Compound: B-cell receptor CD22
    Species: Homo sapiens [TaxId:9606]
    Gene: CD22, SIGLEC2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20273 (4-End)
      • engineered mutation (49)
      • engineered mutation (94)
      • engineered mutation (117)
      • engineered mutation (146)
  • Chain 'T':
    Compound: B-cell receptor CD22
    Species: Homo sapiens [TaxId:9606]
    Gene: CD22, SIGLEC2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20273 (4-End)
      • engineered mutation (49)
      • engineered mutation (94)
      • engineered mutation (117)
      • engineered mutation (146)
  • Heterogens: NAG, BMA, MAN, GOL

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5vl3B (B:)
etgdiqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywa
stresgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaa
psvfifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdst
yslsstltlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >5vl3B (B:)
diqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywastr
esgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaapsv
fifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstysl
sstltlskadyekhkvyacevthqglsspvtks

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5vl3D (D:)
etgdiqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywa
stresgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaa
psvfifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdst
yslsstltlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >5vl3D (D:)
diqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywastr
esgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaapsv
fifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstysl
sstltlskadyekhkvyacevthqglsspvtksfnr

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5vl3F (F:)
etgdiqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywa
stresgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaa
psvfifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdst
yslsstltlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >5vl3F (F:)
diqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywastr
esgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaapsv
fifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstysl
sstltlskadyekhkvyacevthqglsspvtks

  • Chain 'H':
    No sequence available.

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >5vl3L (L:)
etgdiqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywa
stresgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaa
psvfifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdst
yslsstltlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >5vl3L (L:)
diqltqspsslsasvgdrvtmsckssqsvlysanhknylawyqqkpgkapklliywastr
esgvpsrfsgsgsgtdftltisslqpediatyychqylsswtfgggtkleikrtvaapsv
fifppsdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstysl
sstltlskadyekhkvyacevthqglsspvtks

  • Chain 'Q':
    No sequence available.

  • Chain 'R':
    No sequence available.

  • Chain 'S':
    No sequence available.

  • Chain 'T':
    No sequence available.