Structure of PDB 8dzk Chain D Binding Site BS01

Receptor Information

>8dzk Chain D (length=349) Species: 5759 (Entamoeba histolytica)

QIQHIAIVGCVHGKYREMYRQLSEYEKSTGKEISFVICTGDMQTLRYEAD
LVYLKVPPKYKQMGDFHLYYEGKEKAPYLTLFIGGNHESSNVLLHLYNGG
FVCFNMYYLGVCSCININGLRIVGVSGIYKSFDEKKPYTYPPSPNDVVSL
FHTRNYVIQMLSNLSQSSQIDISLSHDWPQGIVMKGNYKQLYRFQPGFKK
DGASLGSPINKVILNTLKPKYWISGHMHCEYHAEEGPTHFIALGKIGYKN
AISYLDLPLKQKTDLEYDKDWVCNLIMTWPAFSNKAQFPDLSYSISELLS
KRTKELDKKIIELWEKYIGLKIIYDSDTFDIQFTSRRFYIEKIYNELNI

Ligand information

>8dzk Chain O (length=4)

uugu

....

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8dzk Crystal Structure of the RNA Lariat Debranching Enzyme Dbr1 with Hydrolyzed Phosphorothioate RNA Product.
• Resolution: 2.1 Å
• Binding residue (original residue number in PDB): H16 D45 K59 Y64 N90 H91 K134 F155 H156 H230 H232
• Binding residue (residue number reindexed from 1): H12 D41 K55 Y60 N86 H87 K130 F151 H152 H226 H228

Enzymatic activity

• Enzyme Commision number: 3.1.4.-

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0005506 iron ion binding
• GO:0008270 zinc ion binding
• GO:0008419 RNA lariat debranching enzyme activity
• GO:0016787 hydrolase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0000375 RNA splicing, via transesterification reactions
• GO:0000398 mRNA splicing, via spliceosome
• GO:0006397 mRNA processing

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0048471 perinuclear region of cytoplasm

External links

• PDB: RCSB:8dzk, PDBe:8dzk, PDBj:8dzk
• PDBsum: 8dzk
• PubMed: 36484984
• UniProt: C4M1P9|DBR1_ENTH1 Lariat debranching enzyme (Gene Name=DBR1)