Structure of PDB 8wx0 Chain A

Receptor sequence

>8wx0A (length=597) Species: 1773 (Mycobacterium tuberculosis)

MSAAEIDEGVFETTATIDNGSFGTRTIRFETGRLALQAAGAVVAYLDDDN
MLLSATTASKNPKEHFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDA
ILTCRLIDRPLRPSFVDGLRNEIQIVVTILSLDPGDLYDVLAINAASAST
QLGGLPFSGPIGGVRVALIDGTWVGFPTVDQIERAVFDMVVAGRIVEGDV
AIMMVEAEATENVVELVEGGAQAPTESVVAAGLEAAKPFIAALCTAQQEL
ADAAGKSGKPTVDFPVFPDYGEDVYYSVSSVATDELAAALTIGGKAERDQ
RIDEIKTQVVQRLADTYEGREKEVGAALRALTKKLVRQRILTDHFRIDGR
GITDIRALSAEVAVVPRAHGSALFERGETQILGVTTLDMIKMAQQIDSLG
PETSKRYMHHYNFPPFSTGETGRVGSPKRREIGHGALAERALVPVLPSVE
EFPYAIRQVSEALGSNGSTSMGSVCASTLALLNAGVPLKAPVAGIAMGLV
SDDIQVEGAVDGVVERRFVTLTDILGAEDAFGDMDFKVAGTKDFVTALQL
DTKLDGIPSQVLAGALEQAKDARLTILEVMAEAIDRPDEMSPYAPRV

3D structure

• PDB: 8wx0 Cryo-EM structures of Mycobacterium tuberculosis polynucleotide phosphorylase suggest a potential mechanism for its RNA substrate degradation.
• Chain: A
• Resolution: 3.7 Å

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	S88 F89 R95 R423	S88 F89 R95 R423
BS02	rna	A	F66 F68 L71 T72 R423 R429 R430	F66 F68 L71 T72 R423 R429 R430

Gene Ontology

Molecular Function

• GO:0000175 3'-5'-RNA exonuclease activity
• GO:0000287 magnesium ion binding
• GO:0003723 RNA binding
• GO:0004654 polyribonucleotide nucleotidyltransferase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006401 RNA catabolic process
• GO:0006402 mRNA catabolic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005886 plasma membrane
• GO:0009274 peptidoglycan-based cell wall

External links

• PDB: RCSB:8wx0, PDBe:8wx0, PDBj:8wx0
• PDBsum: 8wx0
• PubMed: 38395123
• UniProt: P9WI57|PNP_MYCTU Polyribonucleotide nucleotidyltransferase (Gene Name=pnp)