SCOPe 2.08: Structural Classification of Proteins

PDB entry 5yoy

View 5yoy on RCSB PDB site
Description: Crystal structure of the human tumor necrosis factor in complex with golimumab Fv
Class: immune system
Keywords: Cytokine, Antibody, IMMUNE SYSTEM
Deposited on 2017-10-31, released 2018-05-09
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-11-14, with a file datestamp of 2018-11-09.
Experiment type: XRAY
Resolution: 2.73 Å
R-factor: N/A
AEROSPACI score: 0.17 (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):
- Uniprot P01375 (Start-164)
  - cloning artifact (165-166)
Domains in SCOPe 2.08: d5yoya1, d5yoya2
Chain 'B':
Compound: Tumor necrosis factor
Species: Homo sapiens [TaxId:9606]
Gene: TNF, TNFA, TNFSF2
Database cross-references and differences (RAF-indexed):
- Uniprot P01375 (Start-164)
  - cloning artifact (165-166)
Domains in SCOPe 2.08: d5yoyb1, d5yoyb2
Chain 'C':
Compound: Tumor necrosis factor
Species: Homo sapiens [TaxId:9606]
Gene: TNF, TNFA, TNFSF2
Database cross-references and differences (RAF-indexed):
- Uniprot P01375 (Start-164)
  - cloning artifact (165-166)
Domains in SCOPe 2.08: d5yoyc1, d5yoyc2
Chain 'D':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoyd_
Chain 'E':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoye_
Chain 'F':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoyf_
Chain 'G':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY (Start-128)
Domains in SCOPe 2.08: d5yoyg_
Chain 'H':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY (Start-128)
Domains in SCOPe 2.08: d5yoyh_
Chain 'I':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoyi_
Chain 'J':
Compound: Tumor necrosis factor
Species: Homo sapiens [TaxId:9606]
Gene: TNF, TNFA, TNFSF2
Database cross-references and differences (RAF-indexed):
- Uniprot P01375 (Start-164)
  - cloning artifact (165)
Domains in SCOPe 2.08: d5yoyj1, d5yoyj2
Chain 'K':
Compound: Tumor necrosis factor
Species: Homo sapiens [TaxId:9606]
Gene: TNF, TNFA, TNFSF2
Database cross-references and differences (RAF-indexed):
- Uniprot P01375 (Start-164)
  - cloning artifact (165)
Domains in SCOPe 2.08: d5yoyk1, d5yoyk2
Chain 'L':
Compound: Tumor necrosis factor
Species: Homo sapiens [TaxId:9606]
Gene: TNF, TNFA, TNFSF2
Database cross-references and differences (RAF-indexed):
- Uniprot P01375 (Start-164)
  - cloning artifact (165)
Domains in SCOPe 2.08: d5yoyl1, d5yoyl2
Chain 'M':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoym_
Chain 'N':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoyn_
Chain 'O':
Compound: Golimumab light chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY
Domains in SCOPe 2.08: d5yoyo_
Chain 'P':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY (Start-128)
Domains in SCOPe 2.08: d5yoyp_
Chain 'Q':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY (Start-128)
Domains in SCOPe 2.08: d5yoyq_
Chain 'R':
Compound: Golimumab heavy chain variable region
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
- PDB 5YOY (Start-128)
Domains in SCOPe 2.08: d5yoyr_
Heterogens: HOH

PDB Chain Sequences:

Chain 'A':
Sequence, based on SEQRES records: (download)

>5yoyA (A:)
dykddddkvrsssrtpsdkpvahvvanpqaegqlqwlnrranallangvelrdnqlvvps
eglyliysqvlfkgqgcpsthvllthtisriavsyqtkvnllsaikspcqretpegaeak
pwyepiylggvfqlekgdrlsaeinrpdyldfaesgqvyfgiialtsenlyfq