Structure of PDB 8wx0 Chain B

Receptor sequence

>8wx0B (length=592) Species: 1773 (Mycobacterium tuberculosis)

EIDEGVFETTATIDNGSFGTRTIRFETGRLALQAAGAVVAYLDDDNMLLS
ATTASKNPKEHFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDAILTC
RLIDRPLRPSFVDGLRNEIQIVVTILSLDPGDLYDVLAINAASASTQLGG
LPFSGPIGGVRVALIDGTWVGFPTVDQIERAVFDMVVAGRIVEGDVAIMM
VEAEATENVVELVEGGAQAPTESVVAAGLEAAKPFIAALCTAQQELADAA
GKSGKPTVDFPVFPDYGEDVYYSVSSVATDELAAALTIGGKAERDQRIDE
IKTQVVQRLADTYEGREKEVGAALRALTKKLVRQRILTDHFRIDGRGITD
IRALSAEVAVVPRAHGSALFERGETQILGVTTLDMIKMAQQIDSLGPETS
KRYMHHYNFPPFSTGETGRVGSPKRREIGHGALAERALVPVLPSVEEFPY
AIRQVSEALGSNGSTSMGSVCASTLALLNAGVPLKAPVAGIAMGLVSDDI
QVEGAVDGVVERRFVTLTDILGAEDAFGDMDFKVAGTKDFVTALQLDTKL
DGIPSQVLAGALEQAKDARLTILEVMAEAIDRPDEMSPYAPR

3D structure

• PDB: 8wx0 Cryo-EM structures of Mycobacterium tuberculosis polynucleotide phosphorylase suggest a potential mechanism for its RNA substrate degradation.
• Chain: B
• 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	B	G87 S88 F89 F90 D397	G83 S84 F85 F86 D393
BS02	rna	B	F66 F68 R105 R112 R429	F62 F64 R101 R108 R425

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)