5V9P

Crystal structure of pyrrolidine amide inhibitor [(3S)-3-(4-bromo-1H-pyrazol-1-yl)pyrrolidin-1-yl][3-(propan-2-yl)-1H-pyrazol-5-yl]methanone (compound 35) in complex with KDM5A


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyARID-like 8074032 3001026 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AKOG1246_1st,JmjCe5v9pA2 A: beta sandwichesX: jelly-rollH: Double-stranded beta-helix (From Topology)T: Double-stranded beta-helixF: KOG1246_1st,JmjCECOD (1.6)
AARIDe5v9pA1 A: alpha arraysX: HTHH: HTHT: tri-helicalF: ARIDECOD (1.6)
Azf-C5HC2,KOG1246_1ste5v9pA3 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: zf-C5HC2,KOG1246_1stECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF21323Lysine-specific demethylase 5, C-terminal helical domain (KDM5_C-hel)Lysine-specific demethylase 5, C-terminal helical domainThis is the C-terminal helical domain from Lysine-specific demethylase 5 subfamily (KDM5), which is localised between the Jumonji C (JmjC) domain and the C5HC2 zinc finger motif (Pfam:PF02928) [1-5].Domain
PF02373JmjC domain, hydroxylase (JmjC)JmjC domain, hydroxylaseThe JmjC domain belongs to the Cupin superfamily [3]. JmjC-domain proteins may be protein hydroxylases that catalyse a novel histone modification [4]. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the ...The JmjC domain belongs to the Cupin superfamily [3]. JmjC-domain proteins may be protein hydroxylases that catalyse a novel histone modification [4]. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation [5].
Domain
PF02928C5HC2 zinc finger (zf-C5HC2)C5HC2 zinc fingerPredicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji [1]. This domain may have a DNA binding function.Domain
PF02375jmjN domain (JmjN)jmjN domain- Family
PF01388ARID/BRIGHT DNA binding domain (ARID)ARID/BRIGHT DNA binding domainThis domain is know as ARID for AT-Rich Interaction Domain [1], and also known as the BRIGHT domain [3].Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Lysine-specific demethylase 5A
Lysine-specific demethylase 5A---