SCOPe 2.08: Domain d1nakm1: 1nak M:1-107

Lineage for d1nakm1 (1nak M:1-107)

1. Root: SCOPe 2.08

2. Class b: All beta proteins [48724] (180 folds)

3. Fold b.1: Immunoglobulin-like beta-sandwich [48725] (33 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 1.1 [TaxId:10090] [88524] (132 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

8. Domain d1nakm1: 1nak M:1-107 [91759]
   Other proteins in same PDB: d1nakh1, d1nakh2, d1naki1, d1naki2, d1nakl2, d1nakm2
   part of Fab 83.1 against HIV-1 gp120

Details for d1nakm1

PDB Entry: 1nak, 2.57 Å

PDB Description: igg1 fab fragment (83.1) complex with 16-residue peptide (residues 304-321 of hiv-1 gp120 (mn isolate))

PDB Compounds: (M:) Fab 83.1 - light chain

SCOPe Domain Sequences for d1nakm1:

Sequence; same for both SEQRES and ATOM records:

>d1nakm1 b.1.1.1 (M:1-107) Immunoglobulin light chain kappa variable domain, VL-kappa {Mouse (Mus musculus), cluster 1.1 [TaxId: 10090]}
dvvmtqspvslpvslgdqasiscrssqslghssgntylhwflqkpgqspklliykvsnrf
sgvpdrfsgsgsgtdftfkisrveaedlgvyfcfqtthdpytfgggtkleik

Timeline for d1nakm1:

• d1nakm1 first appeared in SCOP 1.67
  
• d1nakm1 appears in SCOPe 2.07