PDB entry 6vmj

View 6vmj on RCSB PDB site
Description: Crystal structure of human Complement Factor D with anti-Factor D Fab 20D12
Class: hydrolase/immune system
Keywords: CFD, Factor D, Fab, HYDROLASE, HYDROLASE-IMMUNE SYSTEM complex
Deposited on 2020-01-28, released 2021-02-03
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-02-03, with a file datestamp of 2021-01-29.
Experiment type: XRAY
Resolution: 2.95 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Fab20D12 Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmja1, d6vmja2
  • Chain 'B':
    Compound: Fab20D12 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmjb_
  • Chain 'E':
    Compound: Fab20D12 Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmje1, d6vmje2
  • Chain 'F':
    Compound: Fab20D12 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmjf_
  • Chain 'I':
    Compound: Fab20D12 Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmji1, d6vmji2
  • Chain 'J':
    Compound: Fab20D12 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmjj_
  • Chain 'L':
    Compound: Fab20D12 Light Chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmjl1, d6vmjl2
  • Chain 'M':
    Compound: Fab20D12 heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6VMJ (0-End)
    Domains in SCOPe 2.08: d6vmjm_
  • Chain 'W':
    Compound: complement factor d
    Species: Homo sapiens [TaxId:9606]
    Gene: CFD, DF, PFD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6vmjw_
  • Chain 'X':
    Compound: complement factor d
    Species: Homo sapiens [TaxId:9606]
    Gene: CFD, DF, PFD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6vmjx_
  • Chain 'Y':
    Compound: complement factor d
    Species: Homo sapiens [TaxId:9606]
    Gene: CFD, DF, PFD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6vmjy_
  • Chain 'Z':
    Compound: complement factor d
    Species: Homo sapiens [TaxId:9606]
    Gene: CFD, DF, PFD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6vmjz_
  • Heterogens: CIT, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6vmjA (A:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjA (A:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrge

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6vmjB (B:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglysl
ssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdktht

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjB (B:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapssggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvv
tvpssslgtqtyicnvnhkpsntkvdkkvep

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6vmjE (E:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjE (E:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrge

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >6vmjF (F:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglysl
ssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdktht

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjF (F:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapssggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvv
tvpssslgtqtyicnvnhkpsntkvdkkvep

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >6vmjI (I:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjI (I:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrge

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >6vmjJ (J:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglysl
ssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdktht

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjJ (J:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapssggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvv
tvpssslgtqtyicnvnhkpsntkvdkkvep

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >6vmjL (L:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjL (L:)
diqmtqspsslsasvgdrvtitckasqnvdtdvawfqqkpgkapkgliysassrysgvps
rfsgsgsgtdftltisslqpedfatyycqqynnypltfgqgtkveikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrge

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >6vmjM (M:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglysl
ssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdktht

    Sequence, based on observed residues (ATOM records): (download) 
    >6vmjM (M:)
evqlvqsgaevkkpgasvkvsckasgytftsyymywvrqapgqglewigeinptsggtnf
nekfksratltvdtststaylelsslrsedtavyycareggfaywgqgtlvtvssastkg
psvfplapssggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslssvv
tvpssslgtqtyicnvnhkpsntkvdkkvepks

  • Chain 'W':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6vmjW (W:)
ilggreaeaharpymasvqlngahlcggvlvaeqwvlsaahcledaadgkvqvllgahsl
sqpepskrlydvlravphpdsqpdtidhdllllqlsekatlgpavrplpwqrvdrdvapg
tlcdvagwgivnhagrrpdslqhvllpvldratcnrrthhdgaiterlmcaesnrrdsck
gdsggplvcggvlegvvtsgsrvcgnrkkpgiytrvasyaawidsvla

  • Chain 'X':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6vmjX (X:)
ilggreaeaharpymasvqlngahlcggvlvaeqwvlsaahcledaadgkvqvllgahsl
sqpepskrlydvlravphpdsqpdtidhdllllqlsekatlgpavrplpwqrvdrdvapg
tlcdvagwgivnhagrrpdslqhvllpvldratcnrrthhdgaiterlmcaesnrrdsck
gdsggplvcggvlegvvtsgsrvcgnrkkpgiytrvasyaawidsvla

  • Chain 'Y':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6vmjY (Y:)
ilggreaeaharpymasvqlngahlcggvlvaeqwvlsaahcledaadgkvqvllgahsl
sqpepskrlydvlravphpdsqpdtidhdllllqlsekatlgpavrplpwqrvdrdvapg
tlcdvagwgivnhagrrpdslqhvllpvldratcnrrthhdgaiterlmcaesnrrdsck
gdsggplvcggvlegvvtsgsrvcgnrkkpgiytrvasyaawidsvla

  • Chain 'Z':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6vmjZ (Z:)
ilggreaeaharpymasvqlngahlcggvlvaeqwvlsaahcledaadgkvqvllgahsl
sqpepskrlydvlravphpdsqpdtidhdllllqlsekatlgpavrplpwqrvdrdvapg
tlcdvagwgivnhagrrpdslqhvllpvldratcnrrthhdgaiterlmcaesnrrdsck
gdsggplvcggvlegvvtsgsrvcgnrkkpgiytrvasyaawidsvla