SCOPe 2.08: Domain d5vmpd_: 5vmp D:

Lineage for d5vmpd_ (5vmp D:)

1. Root: SCOPe 2.08

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

3. Fold b.82: Double-stranded beta-helix [51181] (7 superfamilies)
   one turn of helix is made by two pairs of antiparallel strands linked with short turns
   has appearance of a sandwich of distinct architecture and jelly-roll topology

4. Superfamily b.82.2: Clavaminate synthase-like [51197] (16 families)
   Iron and ketoglutarate-dependent enzymes; elaborated version of this common fold

5. Family b.82.2.14: Jumonji domain / Histone demethylase core [254153] (7 proteins)
   Jumonji domain; Pfam PF02375 (JmjN) and Pfam PF02373 (JmjC); relationship to FIH1 (b.82.2.6) described in PubMed 16983801
   Pfam PF02375 (JmjN) and Pfam PF02373 (JmjC); relationship to FIH1 (b.82.2.6) described in PubMed 16983801; some members include C-terminal helical subdomain (Pfam PF17811)

6. Protein JMJD2A core [254342] (1 species)

7. Species Human (Homo sapiens) [TaxId:9606] [254775] (57 PDB entries)

8. Domain d5vmpd_: 5vmp D: [339674]
   automated match to d4v2wb_
   complexed with 9fj, ni, zn

Details for d5vmpd_

PDB Entry: 5vmp, 2.48 Å

PDB Description: crystal structure of human kdm4 with small molecule inhibitor qc5714

PDB Compounds: (D:) lysine-specific demethylase 4a

SCOPe Domain Sequences for d5vmpd_:

Sequence, based on SEQRES records:

>d5vmpd_ b.82.2.14 (D:) JMJD2A core {Human (Homo sapiens) [TaxId: 9606]}
setlnpsarimtfyptmeefrnfsryiayiesqgahraglakvvppkewkprasyddidd
lvipapiqqlvtgqsglftqyniqkkamtvrefrkiansdkyctprysefeelerkywkn
ltfnppiygadvngtlyekhvdewnigrlrtildlvekesgitiegvntpylyfgmwkts
fawhtedmdlysinylhfgepkswysvppehgkrlerlakgffpgsaqsceaflrhkmtl
isplmlkkygipfdkvtqeagefmitfpygyhagfnhgfncaestnfatrrwieygkqav
lcscrkdmvkismdvfvrkfqperyklwkagkdntvidhtlptpeaaef

Sequence, based on observed residues (ATOM records):

>d5vmpd_ b.82.2.14 (D:) JMJD2A core {Human (Homo sapiens) [TaxId: 9606]}
setlnpsarimtfyptmeefrnfsryiayiesqgahraglakvvppkewkprasyddidd
lvipapiqqlvtgqsglftqyniqkkamtvrefrkiansdkyctprysefeelerkywkn
ltfnppiygadvngtlyekhvdewnigrlrtildlvekesgvntpylyfgmwktsfawht
edmdlysinylhfgepkswysvppehgkrlerlakgffpgsaqsceaflrhkmtlisplm
lkkygipfdkvtqeagefmitfpygyhagfnhgfncaestnfatrrwieygkqavlcscr
vkismdvfvrkfqperyklwkagkdntvidhtlptpeaaef

Timeline for d5vmpd_:

• d5vmpd_ first appeared in SCOPe 2.06
  
• d5vmpd_ appears in SCOPe 2.07