Lineage for Family b.1.1.1: V set domains (antibody variable domain-like)

  1. Root: SCOPe 2.02
  2. 1103260Class b: All beta proteins [48724] (174 folds)
  3. 1103261Fold b.1: Immunoglobulin-like beta-sandwich [48725] (28 superfamilies)
    sandwich; 7 strands in 2 sheets; greek-key
    some members of the fold have additional strands
  4. 1103262Superfamily b.1.1: Immunoglobulin [48726] (5 families) (S)
  5. 1103263Family b.1.1.1: V set domains (antibody variable domain-like) [48727] (33 proteins)

Proteins:

  1. 1103264Alphaherpesvirus glycoprotein E [141008] (1 species)
    elaborated with insertions and C-terminal extensions
  2. 1103270B- and T-lymphocyte attenuator CD272 [158869] (1 species)
  3. 1103274Biliary glycoprotein C (CD66a, CEACAM1A[1,4]), N-terminal domain [81942] (1 species)
  4. 1103277Camelid IG heavy chain variable domain, VHh [88563] (3 species)
    1. 1103278Species Camel (Camelus dromedarius) [TaxId:9838] [88564] (19 PDB entries)
      SQ NA # camelid antibody
    2. 1103312Species Human (Homo sapiens) [TaxId:9606] [158863] (1 PDB entry)
    3. 1103315Species Llama (Lama glama) [TaxId:9844] [88565] (8 PDB entries)
  5. 1103326CD2, first domain [48740] (2 species)
    1. 1103327Species Human (Homo sapiens) [TaxId:9606] [48741] (4 PDB entries)
    2. 1103333Species Norway rat (Rattus norvegicus) [TaxId:10116] [48742] (5 PDB entries)
  6. 1103346CD2-binding domain of CD58, N-terminal domain [48743] (1 species)
  7. 1103352CD28 [158865] (1 species)
    T-cell-specific surface glycoprotein
  8. 1103355CD4 V-set domains [48737] (2 species)
    1. 1103356Species Human (Homo sapiens) [TaxId:9606] [48738] (26 PDB entries)
    2. 1103393Species Rat (Rattus rattus) [TaxId:10117] [48739] (1 PDB entry)
  9. 1103395CD8 [48734] (3 species)
    1. 1103396Species Human (Homo sapiens) [TaxId:9606] [48735] (3 PDB entries)
    2. 1103404Species Mouse (Mus musculus) [TaxId:10090] [48736] (5 PDB entries)
    3. 1103417Species Mouse (Mus musculus), beta-chain [TaxId:10090] [158864] (2 PDB entries)
      Uniprot P10300 22-136
  10. 1103421CD80, N-terminal domain [48745] (1 species)
    a soluble form of b7-1
  11. 1103426CD86 (b7-2), N-terminal domain [63635] (1 species)
  12. 1103432Coxsackie virus and adenovirus receptor (Car), domain 1 [48730] (1 species)
  13. 1103454HSV glycoprotein D [63637] (1 species)
  14. 1103461Immunoglobulin heavy chain variable domain, VH [88543] (21 species)
    VH domains of human and mouse antibodies are clustered by the sequence similarity within the germline encoded segment and then by the size of the complementarity determining regions CDR1 and CDR2, so the clusters may correspond to putative germline families in the species genomes; VH domains with artificial or grafted exogenous CDRs are listed as engineered species
    1. 1103462Species Chinese hamster (Cricetulus griseus) [TaxId:10029] [88561] (1 PDB entry)
    2. 1103465Species Engineered (including hybrid species) [88562] (67 PDB entries)
      SQ NA # humanized antidoby; bactericidal Fab-h6831 ! SQ NA # humanized antibody ! SQ NA # Humanized antibody ! SQ NA # engineered antibody
    3. 1103567Species Human (Homo sapiens), cluster 1 [TaxId:9606] [88544] (36 PDB entries)
    4. 1103627Species Human (Homo sapiens), cluster 2.1 [TaxId:9606] [88545] (3 PDB entries)
    5. 1103633Species Human (Homo sapiens), cluster 2.2 [TaxId:9606] [88546] (2 PDB entries)
    6. 1103637Species Human (Homo sapiens), cluster 3 [TaxId:9606] [88547] (33 PDB entries)
      Uniprot Q6N089 20-243 # 95% sequence identity; natural chimera: antibody heavy chain (Fab HYB3)
    7. 1103709Species Human (Homo sapiens), cluster 4 [TaxId:9606] [101505] (3 PDB entries)
    8. 1103715Species Mouse (Mus musculus), cluster 1 [TaxId:10090] [88548] (46 PDB entries)
      Uniprot P01796 # ! HV27_MOUSE Ig heavy chain V-III region A4
    9. 1103777Species Mouse (Mus musculus), cluster 2.1 [TaxId:10090] [88549] (14 PDB entries)
      Uniprot P18527 # HV56_MOUSE Ig heavy chain V region 914; 90% sequence identity
    10. 1103799Species Mouse (Mus musculus), cluster 2.2 [TaxId:10090] [88550] (53 PDB entries)
      Uniprot P01811 # HV41_MOUSE (P01811) Ig heavy chain V region UPC10
    11. 1103878Species Mouse (Mus musculus), cluster 3.1 [TaxId:10090] [88551] (31 PDB entries)
      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)
    12. 1103919Species Mouse (Mus musculus), cluster 3.2 [TaxId:10090] [88552] (152 PDB entries)
      Uniprot P01756 1-117 # 78% sequense identity; HV12_MOUSE Ig heavy chain V region MOPC 104E ! SQ NA # humanized antibody ! Uniprot P01750 # HV06_MOUSE Ig heavy chain V region 102 precursor ! Uniprot P01750 20-116 # ! HV06_MOUSE Ig heavy chain V region 102 precursor
    13. 1104121Species Mouse (Mus musculus), cluster 3.3 [TaxId:10090] [88553] (1 PDB entry)
    14. 1104124Species Mouse (Mus musculus), cluster 4 [TaxId:10090] [88554] (32 PDB entries)
      Uniprot P06327 20-117 # HV52_MOUSE (P06327) Ig heavy chain V region VH558 A1/A4 precursor; 57% sequence identity ! Uniprot P01631 # KV2G_MOUSE (P01631) Ig kappa chain V-II region 26-10
    15. 1104170Species Mouse (Mus musculus), cluster 5 [TaxId:10090] [88555] (36 PDB entries)
    16. 1104218Species Mouse (Mus musculus), cluster 6 [TaxId:10090] [88556] (12 PDB entries)
      SQ NA # part of Fab 28 against HIV-1 RT
    17. 1104233Species Mouse (Mus musculus), cluster 7.1 [TaxId:10090] [88557] (38 PDB entries)
      Uniprot P18532 # HV61_MOUSE Ig heavy chain V region 1B43 precursor
    18. 1104281Species Mouse (Mus musculus), cluster 7.2 [TaxId:10090] [88558] (31 PDB entries)
    19. 1104316Species Mouse (Mus musculus), cluster 7.3 [TaxId:10090] [88559] (2 PDB entries)
    20. 1104319Species Norway rat (Rattus norvegicus) [TaxId:10116] [88560] (16 PDB entries)
    21. 1104352Species synthetic construct [TaxId:32630] [158862] (3 PDB entries)
  15. 1104358Immunoglobulin light chain kappa variable domain, VL-kappa [88519] (15 species)
    VL-kappa domains of human and mouse antibodies are clustered by the sequence similarity within the germline encoded segment and then by the size of the complementarity determining regions CDR1 and CDR2, so the clusters may correspond to putative germline families in the species genomes; VL-kappa domains with artificial or grafted exogenous CDRs are listed as engineered species
    1. 1104359Species Engineered (including hybrid species) [88533] (52 PDB entries)
      SQ NA # humanized antidoby; bactericidal Fab-h6831 ! SQ NA # Humanized antibody ! SQ NA # humanized antibody ! SQ NA # engineered antibody
    2. 1104431Species Human (Homo sapiens), cluster 1 [TaxId:9606] [88520] (18 PDB entries)
    3. 1104474Species Human (Homo sapiens), cluster 2 [TaxId:9606] [88521] (10 PDB entries)
    4. 1104490Species Human (Homo sapiens), cluster 3.1 [TaxId:9606] [88522] (8 PDB entries)
    5. 1104505Species Human (Homo sapiens), cluster 3.2 [TaxId:9606] [88523] (35 PDB entries)
    6. 1104576Species Mouse (Mus musculus), cluster 1.1 [TaxId:10090] [88524] (127 PDB entries)
      Uniprot P01631 #KV2G_MOUSE Ig kappa chain V-II region 26-10; 79% sequence identity ! Uniprot P06310 # KV2F_HUMAN IG KAPPA CHAIN V-II REGION RPMI 6410 PRECURSOR ! Uniprot P03976 # KV2E_MOUSE (P03976) Ig kappa chain V-II region 17S29.1 ! Uniprot P01642 21-115 # ! KV2G_MOUSE IG KAPPA CHAIN V-II REGION 26-10
    7. 1104739Species Mouse (Mus musculus), cluster 1.2 [TaxId:10090] [88525] (36 PDB entries)
    8. 1104792Species Mouse (Mus musculus), cluster 2 [TaxId:10090] [88526] (30 PDB entries)
    9. 1104835Species Mouse (Mus musculus), cluster 3.1 [TaxId:10090] [88527] (13 PDB entries)
    10. 1104854Species Mouse (Mus musculus), cluster 3.2 [TaxId:10090] [88528] (44 PDB entries)
      Uniprot P04940 # KV6F_MOUSE IG KAPPA CHAIN V-VI REGION NQ2-17.4.1
    11. 1104927Species Mouse (Mus musculus), cluster 3.3 [TaxId:10090] [88529] (2 PDB entries)
    12. 1104931Species Mouse (Mus musculus), cluster 3.4 [TaxId:10090] [88530] (6 PDB entries)
    13. 1104938Species Mouse (Mus musculus), cluster 4 [TaxId:10090] [88531] (184 PDB entries)
      Uniprot P01645 1-106 # 95% sequense identity; KV5L_MOUSE Ig kappa chain V-V region HP 93G7 ! SQ NA # natural chimera; best hits are: Uniprot P01637 (Ig kappa chain V-V region T1) and Uniprot P01837 (Ig kappa chain C region) ! SQ NA # humanized antibody ! SQ NA # part of Fab 28 against HIV-1 RT ! Uniprot P01642 21-115 # ! KV5I_MOUSE Ig kappa chain V-V region L7 precursor
    14. 1105174Species Norway rat (Rattus norvegicus) [TaxId:10116] [88532] (9 PDB entries)
    15. 1105192Species synthetic construct [TaxId:32630] [158859] (4 PDB entries)
  16. 1105202Immunoglobulin light chain lambda variable domain, VL-lambda [88534] (9 species)
    VL-lambda domains of human antibodies are clustered by the sequence similarity within the germline encoded segment and then by the size of the complementarity determining regions CDR1 and CDR2, so the clusters may correspond to putative germline families in the human genome; mouse VL-lambda domains belong to a single germline family
    1. 1105203Species Chinese hamster (Cricetulus griseus) [TaxId:10029] [88542] (1 PDB entry)
    2. 1105206Species Human (Homo sapiens), cluster 1 [TaxId:9606] [88535] (4 PDB entries)
      SQ NA # Bence-Jones protein JTO ! Uniprot P06317 # Ig lambda chain V-VI region SUT
    3. 1105215Species Human (Homo sapiens), cluster 2 [TaxId:9606] [88536] (10 PDB entries)
    4. 1105231Species Human (Homo sapiens), cluster 3.1 [TaxId:9606] [88537] (2 PDB entries)
    5. 1105235Species Human (Homo sapiens), cluster 3.2 [TaxId:9606] [88538] (1 PDB entry)
    6. 1105237Species Human (Homo sapiens), cluster 4 [TaxId:9606] [88539] (23 PDB entries)
    7. 1105283Species Human (Homo sapiens), cluster 5 [TaxId:9606] [88540] (7 PDB entries)
      Uniprot Q8N355 20-230 # 94% sequence identity; natural chimera: antibody light chain (Fab HYB3)
    8. 1105296Species Mouse (Mus musculus) [TaxId:10090] [88541] (34 PDB entries)
    9. 1105343Species Norway rat (Rattus norvegicus) [TaxId:10116] [101504] (8 PDB entries)
  17. 1105365Immunoreceptor CTLA-4 (CD152), N-terminal fragment [48939] (2 species)
    1. 1105366Species Human (Homo sapiens) [TaxId:9606] [48940] (3 PDB entries)
    2. 1105372Species Mouse (Mus musculus) [TaxId:10090] [48941] (1 PDB entry)
  18. 1105377Junction adhesion molecule, JAM, N-terminal domain [48747] (2 species)
    1. 1105378Species Human (Homo sapiens) [TaxId:9606] [89180] (1 PDB entry)
    2. 1105381Species Mouse (Mus musculus) [TaxId:10090] [48748] (1 PDB entry)
  19. 1105383Kin of IRRE-like protein 3, KIRREL3 [158867] (1 species)
  20. 1105386Myelin membrane adhesion molecule P0 [48728] (1 species)
  21. 1105389Myelin oligodendrocyte glycoprotein (MOG) [89174] (1 species)
  22. 1105396N-terminal domain of sialic acid binding Ig-like lectin 7 (SIGLEC-7, p75/AIRM1) [89176] (1 species)
  23. 1105404N-terminal domain of sialoadhesin [48732] (1 species)
  24. 1105414NK cell activating receptor NKP44 [89178] (1 species)
    a triggering partner in natural cytotoxicity
  25. 1105417Novel antigen receptor (against lysozyme) [110042] (1 species)
  26. 1105424Novel antigen receptor 12Y-1 [110044] (1 species)
  27. 1105427Novel antigen receptor 12Y-2 [110046] (1 species)
  28. 1105431Polymeric-immunoglobulin receptor, PIGR [117038] (1 species)
  29. 1105439Programmed cell death protein 1, PD1, extracellular domain [101510] (1 species)
  30. 1105447T-cell antigen receptor [48933] (6 species)
    sequences may differ within each classified species
    1. 1105448Species Human (Homo sapiens), alpha-chain [TaxId:9606] [48935] (17 PDB entries)
    2. 1105470Species Human (Homo sapiens), beta-chain [TaxId:9606] [48937] (30 PDB entries)
    3. 1105524Species Human (Homo sapiens), delta-chain [TaxId:9606] [48938] (3 PDB entries)
    4. 1105533Species Human (Homo sapiens), gamma-chain [TaxId:9606] [63651] (3 PDB entries)
    5. 1105548Species Mouse (Mus musculus), alpha-chain [TaxId:10090] [48934] (21 PDB entries)
    6. 1105586Species Mouse (Mus musculus), beta-chain [TaxId:10090] [48936] (27 PDB entries)
  31. 1105630TREM-1 (triggering receptor expressed on myeloid cells 1) [101506] (2 species)
    1. 1105631Species Human (Homo sapiens) [TaxId:9606] [101507] (2 PDB entries)
      Uniprot Q9NP99 21-133
    2. 1105638Species Mouse (Mus musculus) [TaxId:10090] [117037] (1 PDB entry)
      Uniprot Q9JKE2 25-134
  32. 1105641Tyrosine-protein kinase receptor tyro3, N-terminal domain [101508] (1 species)
  33. 1105645automated matches [190119] (15 species)
    not a true protein
    1. 1105646Species Bos taurus [TaxId:9913] [197337] (1 PDB entry)
    2. 1105648Species Camel (Camelus dromedarius) [TaxId:9838] [187219] (16 PDB entries)
    3. 1105673Species Camelus dromedarius [TaxId:9838] [192715] (2 PDB entries)
    4. 1105682Species Human (Homo sapiens) [TaxId:9606] [188740] (31 PDB entries)
    5. 1105750Species Lama pacos [TaxId:30538] [189142] (2 PDB entries)
    6. 1105754Species Llama (Lama glama) [TaxId:9844] [187485] (23 PDB entries)
    7. 1105799Species Llama glama [TaxId:9844] [196291] (2 PDB entries)
    8. 1105802Species Macaca mulatta [TaxId:9541] [188468] (1 PDB entry)
    9. 1105805Species Mouse (Mus musculus) [TaxId:10090] [186842] (22 PDB entries)
    10. 1105854Species Mus musculus [TaxId:10090] [192765] (2 PDB entries)
    11. 1105862Species Norway rat (Rattus norvegicus) [TaxId:10116] [187415] (7 PDB entries)
    12. 1105871Species Nurse shark (Ginglymostoma cirratum) [TaxId:7801] [187220] (3 PDB entries)
    13. 1105877Species Rattus norvegicus [TaxId:10116] [192775] (1 PDB entry)
    14. 1105885Species Spotted wobbegong (Orectolobus maculatus) [TaxId:168098] [187564] (5 PDB entries)
    15. 1105895Species Vicugna pacos [TaxId:30538] [189756] (5 PDB entries)

More info for Family b.1.1.1: V set domains (antibody variable domain-like)

Timeline for Family b.1.1.1: V set domains (antibody variable domain-like):