SCOPe 2.04: Domain d1gafl1: 1gaf L:1-109

Lineage for d1gafl1 (1gaf L:1-109)

1. Root: SCOPe 2.04

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.1.1.1: V set domains (antibody variable domain-like) [48727] (33 proteins)

6. Protein Immunoglobulin light chain kappa variable domain, VL-kappa [88519] (16 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

7. Species Mouse (Mus musculus), cluster 4 [TaxId:10090] [88531] (213 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

8. Domain d1gafl1: 1gaf L:1-109 [20082]
   Other proteins in same PDB: d1gafh1, d1gafh2, d1gafl2
   part of humanized Fab 48G7
   complexed with npe

Details for d1gafl1

PDB Entry: 1gaf, 1.95 Å

PDB Description: 48g7 hybridoma line fab complexed with hapten 5-(para-nitrophenyl phosphonate)-pentanoic acid

PDB Compounds: (L:) chimeric 48g7 fab

SCOPe Domain Sequences for d1gafl1:

Sequence; same for both SEQRES and ATOM records:

>d1gafl1 b.1.1.1 (L:1-109) Immunoglobulin light chain kappa variable domain, VL-kappa {Mouse (Mus musculus), cluster 4 [TaxId: 10090]}
diqmtqspsslsaslgervsltcrasqeingylgwlqqkpdgtikrliyaastlhsgvpk
rfsgsrsgsdysltisslesedfadyyclqyasyprtfgggtkveikrt

Timeline for d1gafl1:

• d1gafl1 first appeared (with stable ids) in SCOP 1.55
  
• d1gafl1 appears in SCOPe 2.03
  
• d1gafl1 appears in SCOPe 2.05
  
• d1gafl1 appears in the current release, SCOPe 2.08