Structure of PDB 4j7m Chain A

Receptor sequence

>4j7mA (length=358) Species: 10090 (Mus musculus)

PSLRTQPSLYSGPFPFYRRPSELGCFSLDAQRQYHGDARALRYYSPPPIN
GPGPDFDLRDGYPDRYQPRDEEVQERLDHLLRWVLEHRNQLEGGPGWLAG
ATVTWRGHLTKLLTTPYERQEGWQLAASRFQGTLYLSEVETPAARAQRLA
RPPLLRELMYMGYKFEQYMCADKPGGSPDPSGEVNTNVAYCSVLRSRLGN
HPLLFSGEVDCLNPQAPCTQPPSCYVELKTSKEMHSPGQWRSFYRHKLLK
WWAQSFLPGVPHVVAGFRNPEGFVCSLKTFPTMEMFENVRNDREGWNPSV
CMNFCAAFLSFAQSTVVQDDPRLVHLFSWEPGGPVTVSVHRDAPYAFLPS
WYVETMTQ

3D structure

• PDB: 4j7m A mammalian pre-mRNA 5' end capping quality control mechanism and an unexpected link of capping to pre-mRNA processing.
• Chain: A
• Resolution: 1.7 Å

Enzymatic activity

• Enzyme Commision number: 3.1.13.-
  3.6.1.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	A	R132 G133 L184 M185 G188 Y189 E234 K255 T256 K258 Q280 R294	R106 G107 L158 M159 G162 Y163 E208 K229 T230 K232 Q254 R268
BS02	UBD	A	R30 T31 Q32 G358 G359 P360	R4 T5 Q6 G332 G333 P334
BS03	UBD	A	E112 H113 R114 N115 Q116	E86 H87 R88 N89 Q90
BS04	CA	A	D236 E253 L254	D210 E227 L228

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0000287 magnesium ion binding
• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0004527 exonuclease activity
• GO:0008409 5'-3' exonuclease activity
• GO:0034353 mRNA 5'-diphosphatase activity
• GO:0046872 metal ion binding
• GO:0110152 RNA NAD+-cap (NAD+-forming) hydrolase activity

Biological Process

• GO:0006402 mRNA catabolic process
• GO:0050779 RNA destabilization
• GO:0071028 nuclear mRNA surveillance
• GO:0090304 nucleic acid metabolic process
• GO:0110155 NAD-cap decapping

Cellular Component

• GO:0005634 nucleus

External links

• PDB: RCSB:4j7m, PDBe:4j7m, PDBj:4j7m
• PDBsum: 4j7m
• PubMed: 23523372
• UniProt: O70348|DXO_MOUSE Decapping and exoribonuclease protein (Gene Name=Dxo)