SCOPe 2.04: Domain d2yc5a_: 2yc5 A:

Lineage for d2yc5a_ (2yc5 A:)

1. Root: SCOPe 2.04

2. Class c: Alpha and beta proteins (a/b) [51349] (148 folds)

3. Fold c.68: Nucleotide-diphospho-sugar transferases [53447] (1 superfamily)
   3 layers: a/b/a; mixed beta-sheet of 7 strands, order 3214657; strand 6 is antiparallel to the rest

4. Superfamily c.68.1: Nucleotide-diphospho-sugar transferases [53448] (20 families)

5. Family c.68.1.13: Cytidylytransferase [68901] (7 proteins)

6. Protein 4-diphosphocytidyl-2C-methyl-D-erythritol (CDP-me) synthase (IspD, YgbP) [64140] (4 species)

7. Species Thale cress (Arabidopsis thaliana), chloroplast [TaxId:3702] [142690] (7 PDB entries)
   Uniprot P69834 75-300

8. Domain d2yc5a_: 2yc5 A: [207545]
   automated match to d2yc3a_
   complexed with 6bc, act, cd, cu, mg, na, zn

Details for d2yc5a_

PDB Entry: 2yc5, 1.6 Å

PDB Description: inhibitors of the herbicidal target ispd

PDB Compounds: (A:) 2-c-methyl-d-erythritol 4-phosphate cytidylyltransferase, chloroplastic

SCOPe Domain Sequences for d2yc5a_:

Sequence, based on SEQRES records:

>d2yc5a_ c.68.1.13 (A:) 4-diphosphocytidyl-2C-methyl-D-erythritol (CDP-me) synthase (IspD, YgbP) {Thale cress (Arabidopsis thaliana), chloroplast [TaxId: 3702]}
meksvsvillaggqgkrmkmsmpkqyipllgqpialysfftfsrmpevkeivvvcdpffr
difeeyeesidvdlsfaipgkerqdsvysglqeidvnselvcihdsarplvntedvekvl
kdgsavgaavlgvpakatikevnsdslvvktldrktlwemqtpqvikpellkkgfelvks
eglevtddvsiveylkhpvyvsqgsytnikvttpddlllaerils

Sequence, based on observed residues (ATOM records):

>d2yc5a_ c.68.1.13 (A:) 4-diphosphocytidyl-2C-methyl-D-erythritol (CDP-me) synthase (IspD, YgbP) {Thale cress (Arabidopsis thaliana), chloroplast [TaxId: 3702]}
meksvsvillagsmpkqyipllgqpialysfftfsrmpevkeivvvcdpffrdifeeyee
sidvdlsfaipgkerqdsvysglqeidvnselvcihdsarplvntedvekvlkdgsavga
avlgvpakatikevnsdslvvktldrktlwemqtpqvikpellkkgfelvkseglevtdd
vsiveylkhpvyvsqgsytnikvttpddlllaerils

Timeline for d2yc5a_:

• d2yc5a_ first appeared in SCOPe 2.03
  
• d2yc5a_ appears in SCOPe 2.05
  
• d2yc5a_ appears in the current release, SCOPe 2.08, called d2yc5a1