Particularities in protein designations: Human immunoglobulins: New and Newm

Click here to see Part 1 - Discrepancies between protein names in publications and databases.

Part 2 - Protein displays showing the discrepancies between sequences.

Click here to see Protein Newm.

Protein New
V-DOMAINs
       IGL V-J-REGION
C-DOMAINs
       IGL C-REGION

V-DOMAINs

______________________________________________________________________________________________________________________________________________________________________
 IGL V-J-REGION                        FR1-IMGT           CDR1-IMGT      FR2-IMGT      CDR2-IMGT                FR3-IMGT                   CDR3-IMGT     FR4-IMGT
                                           (1-26)             (27-38)        (39-55)       (56-65)                  (66-104)                   (105-117)    (118-128)
_______________________________ __________________________ ____________ _________________ __________ _______________________________________ _____________ ___________
                                1       10        20         30         40        50         60         70        80        90       100        110        120
                                .........|.........|...... ...|........ .|.........|..... ....|..... ....|.........|.........|.........|.... .....|....... ..|........

Z73661     ,IGLV1-51*02(1)      QSVLTQPPS.VSAAPGQKVTISCSGS SSNIGNNY.... VSWYQQLPGTAPKLLIY ENN....... KRPSGIP.DRFSGSK..SGTSATLGITGLQTGDEADYYC GTWDSSLSA....



[1]                             ESVLTQPPS.VSAAPGQKVTISCSGG STNIGNNY.... VSWHQHLPGTAPKLLIY EDN....... KRPSGIP.DRISASK..SGTSATLGITGLRTGDEADYYC ATWDSS..LNAVV FGGGTKVTVLG

Kabat      ,007436              pSVLTQPPS.VSAAPGQKVTISCSGG STNIGNNY.... VSWHQHLPGTAPKLLIY EDN....... KRPSGIP.DRISASK..SGTSATLAITGLRTGDEADYYC ATWDSS..LNAVV FGGGTKVTVLG

PIR        ,L1HUNW A01964       QSVLTQPPS.VSAAPGQKVTISCSGG STNIGNNY.... VSWHQHLPGTAPKLLIY EDN....... KRPSGIP.DRISASK..SGTSATLGITGLRTGDEADYYC ATWDSS..LNAVV FGGGTKVTVLG

SWISS-PROT ,P01701              QSVLTQPPS.VSAAPGQKVTISCSGG STNIGNNY.... VSWHQHLPGTAPKLLIY EDN....... KRPSGIP.DRISASK..SGTSATLGITGLRTGDEADYYC ATWDSS..LNAVV FGGGTKVTVLG

Legend:
  • Sequences are shown according to the chronological order of the publications.
  • p: pyrrolidone carboxylic acid.
    In green, indetermination in the protein sequence or extrapolation from other sequences. In blue, discrepancies between amino acid sequences in databases and publications. Cysteines involved in the disulphide bridge are shown in red.
  • Amino acids numbering of the rearranged CDR3-IMGT [105-117] and of the FR4-IMGT [118-128] is according to the IMGT unique numbering for V-DOMAINs. Gaps have been created at positions 111-112 by comparison to a "13 amino acid long" rearranged CDR3-IMGT sequence.
    Amino acids 105-110 and 113-115 belong to the V-REGION and 116-128 to the J-REGION.

IMGT note:
(1)Probable germline IGLV gene involved in the New rearrangement. The IGL V-J New rearrangement is the following: IGLV1-51*02-IGLJ2*01.




C-DOMAINs

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 IGL C-REGION 
____________________________________________________________________________________________________________________________________________________________________________
                               A                 B         BC         C               D                     E              F               G
                         -------------->    ---------->             ----->        ----------->       -------------->  ------------->   ---------->
                          1       10   15  16  20 23      30    36 39 41 45      77     84             85  89     96 97    104   110 114   120       130       140       150
                    654321|........|....|123|...|...... ...|.....|  |.....|1234567|......|12345677654321|..........|12|............|...|.....|.........|.........|.........|

J00253  ,IGLC2*01(1)  QPKAAPSVTLFPPSSEELQ...ANKATLVCLIS DFYP..GAVT  VAWKADSSPVK.AGVETTTPSKQSNN.......KYAASSYLSLTPEQW..KSHRSYSCQVTHE....GSTVEKTVAPTECS



[1] and Kabat,013785  QPKAAPSVTLFPPSSEELQ...ANKATLVCLIS DFYP..GAVT  VAWKADSSPVK.AGVETTTPSKQSNN.......KYAASSYLSLTPEQW..KSHRSYSCQVTHE....GSTVEKTVAPTECS

Legend:
  • Cysteines involved in the disulphide bridge are shown in red.

IMGT note:
(1)Translation of the genomic IGLC2*01 C-REGION. IGLC2*01 and IGLC2*02 only differ by silent mutations.


Reference:
[1] Langer, B. et al., Hoppe-Seyler's Z. Physiol. Chem., 349, 945-951 (1968). PMID: 4177823

Created: 03/04/2001
Author: Lisa Truong