SCOPe 2.03: Domain d2dtud1: 2dtu D:1-375

Lineage for d2dtud1 (2dtu D:1-375)

1. Root: SCOPe 2.03

2. Class c: Alpha and beta proteins (a/b) [51349] (147 folds)

3. Fold c.55: Ribonuclease H-like motif [53066] (7 superfamilies)
   3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest

4. Superfamily c.55.3: Ribonuclease H-like [53098] (15 families)
   consists of one domain of this fold

5. Family c.55.3.5: DnaQ-like 3'-5' exonuclease [53118] (16 proteins)
   contains Pfam PF00929

6. Protein Exonuclease domain of family B DNA polymerases [53125] (8 species)
   elaborated with additional structures and the N-terminal subdomain

7. Species Bacteriophage RB69 [TaxId:12353] [53127] (49 PDB entries)
   additional N-terminal subdomain contains rudimental OB-fold and rudimental ferredoxin-like fold

8. Domain d2dtud1: 2dtu D:1-375 [230657]
   Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
   automated match to d1ih7a1
   protein/DNA complex

Details for d2dtud1

PDB Entry: 2dtu, 2.37 Å

PDB Description: crystal structure of the beta hairpin loop deletion variant of rb69 gp43 in complex with dna containing an abasic site analog

PDB Compounds: (D:) DNA polymerase

SCOPe Domain Sequences for d2dtud1:

Sequence; same for both SEQRES and ATOM records:

>d2dtud1 c.55.3.5 (D:1-375) Exonuclease domain of family B DNA polymerases {Bacteriophage RB69 [TaxId: 12353]}
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvgeiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkydg
pisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwda
iifnslke

Timeline for d2dtud1:

• d2dtud1 is new in SCOPe 2.03-stable
  
• d2dtud1 appears in SCOPe 2.04
  
• d2dtud1 appears in the current release, SCOPe 2.08