PDB entry 2j6e

View 2j6e on RCSB PDB site
Description: crystal structure of an autoimmune complex between a human igm rheumatoid factor and igg1 fc reveals a novel fc epitope and evidence for affinity maturation
Class: immune system
Keywords: autoimmune complex human igm rheumatoid factor igg1-fc, immunoglobulin c region, membrane, glycoprotein, transmembrane, hypothetical protein, immune system, immunoglobulin domain
Deposited on 2006-09-28, released 2007-04-10
The last revision prior to the SCOPe 2.01 freeze date was dated 2009-02-24, with a file datestamp of 2009-03-01.
Experiment type: XRAY
Resolution: 3 Å
R-factor: 0.2234
AEROSPACI score: 0.18 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Ig gamma-1 chain C region
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01857
      • conflict (54)
    Domains in SCOPe 2.01: d2j6ea1, d2j6ea2
  • Chain 'B':
    Compound: Ig gamma-1 chain C region
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01857
      • conflict (54)
    Domains in SCOPe 2.01: d2j6eb1, d2j6eb2
  • Chain 'H':
    Compound: igm
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J6E (Start-227)
    Domains in SCOPe 2.01: d2j6eh1, d2j6eh2
  • Chain 'I':
    Compound: igm
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J6E (Start-227)
    Domains in SCOPe 2.01: d2j6ei1, d2j6ei2
  • Chain 'L':
    Compound: igm
    Species: Homo sapiens [TaxId:9606]
    Domains in SCOPe 2.01: d2j6el1, d2j6el2
  • Chain 'M':
    Compound: igm
    Species: Homo sapiens [TaxId:9606]
    Domains in SCOPe 2.01: d2j6em1, d2j6em2
  • Heterogens: CD, ZN, CAC, MPD, ACT, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2j6eA (A:)
epkscdkthtcppcpapellggpsvflfppkpkdtlmisrtpevtcvvvdvsheepevkf
nwyvdgvevhnaktkpreeqynstyrvvsvltvlhqdwlngkeykckvsnkalpapiekt
iskakgqprepqvytlppsrdeltknqvsltclvkgfypsdiavewesngqpennykttp
pvldsdgsfflyskltvdksrwqqgnvfscsvmhealhnhytqkslslspgk

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eA (A:)
ggpsvflfppkpkdtlmisrtpevtcvvvdvsheepevkfnwyvdgvevhnaktkpreeq
ynstyrvvsvltvlhqdwlngkeykckvsnkalpapiektiskakgqprepqvytlppsr
deltknqvsltclvkgfypsdiavewesngqpennykttppvldsdgsfflyskltvdks
rwqqgnvfscsvmhealhnhytqkslslsp

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2j6eB (B:)
epkscdkthtcppcpapellggpsvflfppkpkdtlmisrtpevtcvvvdvsheepevkf
nwyvdgvevhnaktkpreeqynstyrvvsvltvlhqdwlngkeykckvsnkalpapiekt
iskakgqprepqvytlppsrdeltknqvsltclvkgfypsdiavewesngqpennykttp
pvldsdgsfflyskltvdksrwqqgnvfscsvmhealhnhytqkslslspgk

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eB (B:)
psvflfppkpkdtlmisrtpevtcvvvdvsheepevkfnwyvdgvevhnaktkpreeqyn
styrvvsvltvlhqdwlngkeykckvsnkalpapiektiskakgqprepqvytlppsrde
ltknqvsltclvkgfypsdiavewesngqpennykttppvldsdgsfflyskltvdksrw
qqgnvfscsvmhealhnhytqkslslspg

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >2j6eH (H:)
lllvaaprwlsqlqlqesgpglvkpsetlsltctvsggsisrgshywgwirqppgkglew
igsiyysgntyfnpslksrvtisvdtsknqfslklssvtaadtavyycarlgpddytldg
mdvwgqgttvtvssgsasaptlfplvscdtssvavgclaqdflpdsitfswkyknnsdis
strgfpsvlrggkyaatsqvllpskdvmqgtdehvvckvqhpngnkeknvp

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eH (H:)
qlqlqesgpglvkpsetlsltctvsggsisrgshywgwirqppgkglewigsiyysgnty
fnpslksrvtisvdtsknqfslklssvtaadtavyycarlgpddytldgmdvwgqgttvt
vssgsasaptlfplvssvavgclaqdflpdsitfswkyknnsdisstrgfpsvlrggkya
atsqvllpskdvmqgtdehvvckvqhpngnkeknvp

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >2j6eI (I:)
lllvaaprwlsqlqlqesgpglvkpsetlsltctvsggsisrgshywgwirqppgkglew
igsiyysgntyfnpslksrvtisvdtsknqfslklssvtaadtavyycarlgpddytldg
mdvwgqgttvtvssgsasaptlfplvscdtssvavgclaqdflpdsitfswkyknnsdis
strgfpsvlrggkyaatsqvllpskdvmqgtdehvvckvqhpngnkeknvp

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eI (I:)
qlqlqesgpglvkpsetlsltctvsggsisrgshywgwirqppgkglewigsiyysgnty
fnpslksrvtisvdtsknqfslklssvtaadtavyycarlgpddytldgmdvwgqgttvt
vssgsasaptlfplvscdtssvavgclaqdflpdsitfswkyknnsdisstrgfpsvlrg
gkyaatsqvllpskdvmqgtdehvvckvqhpngnkeknvp

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >2j6eL (L:)
magfpllltllthcagswaqsvltqppsasgtpgqrvtiscsgsssnigsnyvywyqqlp
gtapklliyrnnqrpsgvpdrfsgsksgtsaslaisglrsedeadyycatwddslsavif
gggtkltvlgqpkaapsvtlfppsseelqankatlvclisdffpgavtvawkadgapvka
gvettkpskqsnnkyaassylsltpeqwkshrsyscqvthegstvektvaptec

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eL (L:)
qsvltqppsasgtpgqrvtiscsgsssnigsnyvywyqqlpgtapklliyrnnqrpsgvp
drfsgsksgtsaslaisglrsedeadyycatwddslsavifgggtkltvlgqpkaapsvt
lfppsseelqankatlvclisdffpgavtvawkadgapvkagvettkpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvapte

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >2j6eM (M:)
magfpllltllthcagswaqsvltqppsasgtpgqrvtiscsgsssnigsnyvywyqqlp
gtapklliyrnnqrpsgvpdrfsgsksgtsaslaisglrsedeadyycatwddslsavif
gggtkltvlgqpkaapsvtlfppsseelqankatlvclisdffpgavtvawkadgapvka
gvettkpskqsnnkyaassylsltpeqwkshrsyscqvthegstvektvaptec

    Sequence, based on observed residues (ATOM records): (download) 
    >2j6eM (M:)
qsvltqppsasgtpgqrvtiscsgsssnigsnyvywyqqlpgtapklliyrnnqrpsgvp
drfsgsksgtsaslaisglrsedeadyycatwddslsavifgggtkltvlgqpkaapsvt
lfppsseelqankatlvclisdffpgavtvawkadgapvkagvettkpskqsnnkyaass
ylsltpeqwkshrsyscqvthegstvektvaptec