Structure of PDB 3f1j Chain A Binding Site BS01

Receptor Information

>3f1j Chain A (length=140) Species: 12455 (Borna disease virus)

SKHSYVELKDKVIVPGWPTLMLEIDFVGGTSRNQFLNIPFLSVKEPLQLP
REKKLTDYFTIDVEPAGHSLVNIYFQIDDFLLLTLNSLSVYKDPIRKYMF
LRLNKEQSKHAINAAFNVFSYRLRNIGVGPLGPDIRSSGP

Ligand information

• Ligand ID: C5P
• InChI: InChI=1S/C9H14N3O8P/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(20-8)3-19-21(16,17)18/h1-2,4,6-8,13-14H,3H2,(H2,10,11,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1
• InChIKey: IERHLVCPSMICTF-XVFCMESISA-N
• SMILES:
  CACTVS 3.341: NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O
  OpenEye OEToolkits 1.5.0: C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)O)O)O
  CACTVS 3.341: NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O
  OpenEye OEToolkits 1.5.0: C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O
  ACDLabs 10.04: O=C1N=C(N)C=CN1C2OC(C(O)C2O)COP(=O)(O)O
• Formula: C9 H14 N3 O8 P
• Name: CYTIDINE-5'-MONOPHOSPHATE
• ChEMBL: CHEMBL307679
• DrugBank: DB03403
• ZINC: ZINC000003861744
• PDB chain: 3f1j Chain A Residue 300

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3f1j Crystal structure of the Borna disease virus matrix protein (BDV-M) reveals ssRNA binding properties
• Resolution: 2.65 Å
• Binding residue (original residue number in PDB): Q36 F37 H112
• Binding residue (residue number reindexed from 1): Q34 F35 H110
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0039660 structural constituent of virion
• GO:0042802 identical protein binding

Cellular Component

• GO:0016020 membrane
• GO:0020002 host cell plasma membrane
• GO:0030430 host cell cytoplasm
• GO:0044423 virion component

External links

• PDB: RCSB:3f1j, PDBe:3f1j, PDBj:3f1j
• PDBsum: 3f1j
• PubMed: 19237566
• UniProt: P0C794|MATRX_BDV1 Matrix protein (Gene Name=M)