SCOPe 2.08: Domain d1yekh1: 1yek H:1-113

Lineage for d1yekh1 (1yek H:1-113)

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 heavy chain variable domain, VH [88543] (22 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

7. Species Mouse (Mus musculus), cluster 3.2 [TaxId:10090] [88552] (181 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

8. Domain d1yekh1: 1yek H:1-113 [20147]
   Other proteins in same PDB: d1yekh2, d1yekl1, d1yekl2
   part of Fab D2.3
   complexed with npo, zn

Details for d1yekh1

PDB Entry: 1yek, 2.1 Å

PDB Description: catalytic antibody d2.3 complex

PDB Compounds: (H:) protein (ig antibody d2.3 (heavy chain))

SCOPe Domain Sequences for d1yekh1:

Sequence; same for both SEQRES and ATOM records:

>d1yekh1 b.1.1.1 (H:1-113) Immunoglobulin heavy chain variable domain, VH {Mouse (Mus musculus), cluster 3.2 [TaxId: 10090]}
emqlqqsgaellrpgtsvklscktsgyiftsywihwvkqrsgqglewiariypgtgstyy
nekfkgkatltadkssstaymqlstlksedsavyfctrwgfipvredyvmdywgqgtlvt
vss

Timeline for d1yekh1:

• d1yekh1 first appeared (with stable ids) in SCOP 1.55
  
• d1yekh1 appears in SCOPe 2.07