SCOPe 2.05: Family b.1.1.2: C1 set domains (antibody constant domain-like)

Lineage for Family b.1.1.2: C1 set domains (antibody constant domain-like)

1. Root: SCOPe 2.05

2. Class b: All beta proteins [48724] (176 folds)

3. Fold b.1: Immunoglobulin-like beta-sandwich [48725] (31 superfamilies)
   sandwich; 7 strands in 2 sheets; greek-key
   some members of the fold have additional strands

4. Superfamily b.1.1: Immunoglobulin [48726] (5 families)

5. Family b.1.1.2: C1 set domains (antibody constant domain-like) [48942] (24 proteins)

Proteins:

1. beta2-microglobulin [88600] (5 species)

   1. Species Cow (Bos taurus) [TaxId:9913] [48946] (6 PDB entries)

   2. Species Human (Homo sapiens) [TaxId:9606] [88602] (388 PDB entries)
      Uniprot P61769 21-119 ! Uniprot P01884

   3. Species Mouse (Mus musculus) [TaxId:10090] [88603] (174 PDB entries)
      Uniprot P01887

   4. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88601] (6 PDB entries)

   5. Species Pig (Sus scrofa) [TaxId:9823] [189845] (2 PDB entries)

2. CD1, alpha-3 domain [88615] (5 species)

   1. Species Cow (Bos taurus) [TaxId:9913] [226527] (2 PDB entries)

   2. Species Human (Homo sapiens), CD1a [TaxId:9606] [101513] (5 PDB entries)

   3. Species Human (Homo sapiens), CD1b [TaxId:9606] [88617] (10 PDB entries)

   4. Species Human (Homo sapiens), CD1d [TaxId:9606] [158876] (2 PDB entries)
      Uniprot P15813 202-295

   5. Species Mouse (Mus musculus) [TaxId:10090] [88616] (9 PDB entries)

3. Class I MHC homolog, alpha-3 domain [88610] (4 species)
   gamma, delta T-cell ligand

   1. Species Human (Homo sapiens), Mic-a [TaxId:9606] [48968] (2 PDB entries)

   2. Species Human (Homo sapiens), Mic-b [TaxId:9606] [74826] (1 PDB entry)

   3. Species Mouse (Mus musculus), t10 [TaxId:10090] [101512] (1 PDB entry)

   4. Species Mouse (Mus musculus), t22 [TaxId:10090] [88611] (2 PDB entries)

4. Class I MHC, alpha-3 domain [88604] (4 species)

   1. Species Human (Homo sapiens) [TaxId:9606] [88605] (189 PDB entries)
      Uniprot P30685 25-300 ! Uniprot P30443 25-298 # 1A01_HUMAN HLA class I histocompatibility antigen, A-1 alpha chain precursor ! Uniprot P30481 25-300 ! Uniprot P01892 25-298 ! Uniprot P13746 25-299 # 1A11_HUMAN HLA class I histocompatibility antigen, A-11 alpha chain precursor

   2. Species Mouse (Mus musculus) [TaxId:10090] [88606] (103 PDB entries)
      Uniprot P01901 22-299

   3. Species Norway rat (Rattus norvegicus), RT1-AA [TaxId:10116] [88607] (3 PDB entries)

   4. Species Rhesus monkey (Macaca mulatta) [TaxId:9544] [158875] (1 PDB entry)

5. Class II MHC alpha chain, C-terminal domain [88618] (6 species)

   1. Species Human (Homo sapiens), HLA-DM [TaxId:9606] [88619] (1 PDB entry)
      probably orthologous to the mouse H2-DM

   2. Species Human (Homo sapiens), HLA-DQ group [TaxId:9606] [88623] (3 PDB entries)
      probably orthologous to the mouse I-A group

   3. Species Human (Homo sapiens), HLA-DR group [TaxId:9606] [88621] (37 PDB entries)
      Uniprot P01903 28-207
      probably orthologous to the mouse I-E group

   4. Species Mouse (Mus musculus), H2-DM [TaxId:10090] [88620] (1 PDB entry)
      probably orthologous to the human HLA-DM

   5. Species Mouse (Mus musculus), I-A group [TaxId:10090] [88624] (25 PDB entries)
      probably orthologous to the human HLA-DQ group

   6. Species Mouse (Mus musculus), I-E group [TaxId:10090] [88622] (9 PDB entries)
      probably orthologous to the human HLA-DR group

6. Class II MHC beta chain, C-terminal domain [88625] (6 species)

   1. Species Human (Homo sapiens), HLA-DM [TaxId:9606] [88626] (1 PDB entry)
      probably orthologous to the mouse H2-DM

   2. Species Human (Homo sapiens), HLA-DQ group [TaxId:9606] [88630] (3 PDB entries)
      probably orthologous to the mouse I-A group

   3. Species Human (Homo sapiens), HLA-DR group [TaxId:9606] [88628] (40 PDB entries)
      Uniprot P04229 30-219
      probably orthologous to the mouse I-E group

   4. Species Mouse (Mus musculus), H2-DM [TaxId:10090] [88627] (1 PDB entry)
      probably orthologous to the human HLA-DM

   5. Species Mouse (Mus musculus), I-A group [TaxId:10090] [88631] (17 PDB entries)
      probably orthologous to the human HLA-DQ group

   6. Species Mouse (Mus musculus), I-E group [TaxId:10090] [88629] (9 PDB entries)
      probably orthologous to the human HLA-DR group

7. Fc (IgG) receptor, alpha-3 domain [88612] (2 species)

   1. Species Human (Homo sapiens) [TaxId:9606] [88614] (1 PDB entry)

   2. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88613] (3 PDB entries)

8. Hemochromatosis protein Hfe, alpha-3 domain [88608] (1 species)

   • Species Human (Homo sapiens) [TaxId:9606] [88609] (2 PDB entries)

9. Immunoglobulin heavy chain alpha constant domain 1, CH1-alpha [88580] (1 species)

   • Species Mouse (Mus musculus) [TaxId:10090] [88581] (3 PDB entries)

10. Immunoglobulin heavy chain alpha constant domain 2, CH2-alpha [89181] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [89182] (2 PDB entries)

11. Immunoglobulin heavy chain alpha constant domain 3, CH3-alpha [89183] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [89184] (2 PDB entries)

12. Immunoglobulin heavy chain epsilon constant domain 2, CH2-epsilon [88594] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [88595] (2 PDB entries)

13. Immunoglobulin heavy chain epsilon constant domain 3, CH3-epsilon [88596] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [88597] (3 PDB entries)

14. Immunoglobulin heavy chain epsilon constant domain 4, CH4-epsilon [88598] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [88599] (3 PDB entries)

15. Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma [88574] (6 species)

    1. Species Chinese hamster (Cricetulus griseus) [TaxId:10029] [88579] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [88575] (179 PDB entries)
       including humanized antibodies (chimeric proteins with human constant domains)
       Uniprot Q6N089 20-243 # 95% sequence identity; natural chimera: antibody heavy chain (Fab HYB3) ! SQ NA # humanized antibody ! Uniprot P01857 # IGHG1_HUMAN Ig gamma-1 chain C region ! SQ NA # engineered antibody

    3. Species Mouse (Mus musculus) [TaxId:10090] [88576] (415 PDB entries)
       Uniprot P01864 # GCAB_MOUSE Ig gamma-2A chain C region secreted form (B allele) ! Uniprot P01863 #GCAA_MOUSE Ig gamma-2A chain C region, A allele; 86% sequence identity ! SQ NA # natural chimera; best hits are: Uniprot P01751 (Ig heavy chain V region B1-8/186-2) and Uniprot P01864 (Ig gamma-2A chain C region secreted form) ! Uniprot P01868 # GC1_MOUSE Ig gamma-1 chain C region secreted form ! Uniprot P01864 # GCAB_MOUSE (P01864) Ig gamma-2A chain C region ! Uniprot P01837 # KAC_MOUSE (P01837) Ig kappa chain C region ! Uniprot P01863 # GCAA_MOUSE Ig gamma-2A chain C region, A allele ! SQ NA # part of Fab 28 against HIV-1 RT ! Uniprot P01868 # ! GC1_MOUSE Ig gamma-1 chain C region secreted form

    4. Species Mouse (Mus musculus), gamma3 [TaxId:10090] [88577] (8 PDB entries)
       Uniprot P22436 # GC3_MOUSE (P22436) Ig gamma-3 chain C region

    5. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88578] (5 PDB entries)

    6. Species Synthetic construct [TaxId:32630] [158874] (1 PDB entry)

16. Immunoglobulin heavy chain gamma constant domain 2, CH2-gamma [88584] (4 species)

    1. Species Human (Homo sapiens) [TaxId:9606] [88585] (41 PDB entries)
       Uniprot P01857 #118-327 ! Uniprot P01857 118-327 # GC1_HUMAN Ig gamma-1 chain C region

    2. Species Mouse (Mus musculus) [TaxId:10090] [88586] (1 PDB entry)

    3. Species Mouse (Mus musculus), gamma2 [TaxId:10090] [88587] (1 PDB entry)

    4. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88588] (3 PDB entries)

17. Immunoglobulin heavy chain gamma constant domain 3, CH3-gamma [88589] (5 species)

    1. Species Guinea pig (Cavia porcellus) [TaxId:10141] [49123] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [88590] (49 PDB entries)
       Uniprot P01857 #118-327 ! Uniprot P01857 118-327 # GC1_HUMAN Ig gamma-1 chain C region

    3. Species Mouse (Mus musculus) [TaxId:10090] [88591] (2 PDB entries)

    4. Species Mouse (Mus musculus), gamma2 [TaxId:10090] [88592] (1 PDB entry)

    5. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88593] (3 PDB entries)

18. Immunoglobulin heavy chain mu constant domain 1, CH1-mu [88582] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [88583] (7 PDB entries)

19. Immunoglobulin light chain kappa constant domain, CL-kappa [88566] (4 species)

    1. Species Human (Homo sapiens) [TaxId:9606] [88569] (144 PDB entries)
       including humanized antibodies (chimeric proteins with human constant domains)
       SQ NA # humanized antibody ! Uniprot P01834 # KAC_HUMAN Ig kappa chain C region ! SQ P01834 # KAC_HUMAN Ig kappa chain C region. ! SQ NA # engineered antibody

    2. Species Mouse (Mus musculus) [TaxId:10090] [88567] (346 PDB entries)
       Uniprot P01837# KAC_MOUSE Ig kappa chain C region; 99% sequence identity ! SQ NA # natural chimera; best hits are: Uniprot P01637 (Ig kappa chain V-V region T1) and Uniprot P01837 (Ig kappa chain C region) ! Uniprot P01837 # KAC_MOUSE Ig kappa chain C region ! Uniprot P01837 # KAC_MOUSE (P01837) Ig kappa chain C region ! SQ NA # part of Fab 28 against HIV-1 RT ! Uniprot P01837 # ! KAC_MOUSE Ig kappa chain C region

    3. Species Norway rat (Rattus norvegicus) [TaxId:10116] [88568] (5 PDB entries)

    4. Species Synthetic construct [TaxId:32630] [158871] (1 PDB entry)

20. Immunoglobulin light chain lambda constant domain, CL-lambda [88570] (3 species)

    1. Species Chinese hamster (Cricetulus griseus) [TaxId:10029] [88573] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [88572] (46 PDB entries)

    3. Species Mouse (Mus musculus) [TaxId:10090] [88571] (21 PDB entries)
       Uniprot Q8N355 20-230 # 94% sequence identity; natural chimera: antibody light chain (Fab HYB3)

21. Immunomodulatory protein m144, alpha-3 domain [110048] (1 species)

    • Species Murine cytomegalovirus [TaxId:10366] [110049] (2 PDB entries)
      Uniprot Q69G19 27-263 # 95% sequence identity

22. T-cell antigen receptor [49125] (7 species)

    1. Species Human (Homo sapiens), alpha-chain [TaxId:9606] [49127] (20 PDB entries)

    2. Species Human (Homo sapiens), beta-chain [TaxId:9606] [49129] (29 PDB entries)

    3. Species Human (Homo sapiens), delta-chain [TaxId:9606] [63662] (2 PDB entries)

    4. Species Human (Homo sapiens), gamma-chain [TaxId:9606] [63661] (2 PDB entries)

    5. Species Mouse (Mus musculus) [TaxId:10090] [226194] (2 PDB entries)

    6. Species Mouse (Mus musculus), alpha-chain [TaxId:10090] [49126] (11 PDB entries)

    7. Species Mouse (Mus musculus), beta-chain [TaxId:10090] [49128] (15 PDB entries)

23. Zinc-alpha-2-glycoprotein, ZAG, alpha-3 domain [48965] (1 species)
    fat depleting factor related to class I MHC

    • Species Human (Homo sapiens) [TaxId:9606] [48966] (7 PDB entries)
      Uniprot P25311 22-294

24. automated matches [190374] (14 species)
    not a true protein

    1. Species Chimpanzee (Pan troglodytes) [TaxId:9598] [226268] (1 PDB entry)

    2. Species Cow (Bos taurus) [TaxId:9913] [225911] (1 PDB entry)

    3. Species Escherichia coli [TaxId:562] [224854] (1 PDB entry)

    4. Species Homo sapiens [TaxId:9606] [268989] (70 PDB entries)

    5. Species Homo sapiens, [TaxId:9606] [268392] (1 PDB entry)

    6. Species Human (Homo sapiens) [TaxId:9606] [187221] (409 PDB entries)

    7. Species Llama glama [TaxId:9844] [271450] (2 PDB entries)

    8. Species Mouse (Mus musculus) [TaxId:10090] [224855] (368 PDB entries)

    9. Species Murinae, homo sapiens [TaxId:39107] [228176] (2 PDB entries)

    10. Species Mus musculus [TaxId:10090] [272441] (35 PDB entries)

    11. Species Mus musculus, [TaxId:10090] [272267] (3 PDB entries)

    12. Species Norway rat (Rattus norvegicus) [TaxId:10116] [262079] (2 PDB entries)

    13. Species Rabbit (Oryctolagus cuniculus) [TaxId:9986] [226687] (4 PDB entries)

    14. Species Rhesus monkey (Macaca mulatta) [TaxId:9544] [226134] (5 PDB entries)

More info for Family b.1.1.2: C1 set domains (antibody constant domain-like)

Timeline for Family b.1.1.2: C1 set domains (antibody constant domain-like):

• Family b.1.1.2: C1 set domains (antibody constant domain-like) first appeared (with stable ids) in SCOP 1.55
  
• Family b.1.1.2: C1 set domains (antibody constant domain-like) appears in SCOPe 2.04
  
• Family b.1.1.2: C1 set domains (antibody constant domain-like) appears in SCOPe 2.06
  
• Family b.1.1.2: C1 set domains (antibody constant domain-like) appears in the current release, SCOPe 2.08