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Deposition Date 2023-08-03
Release Date 2024-03-06
Last Version Date 2024-11-06
Entry Detail
PDB ID:
8TOC
Keywords:
VIRUS/RNA
Title:
Acinetobacter phage AP205
Biological Source:
Source Organism:
Bacteria abnormis (Taxon ID: 629396)
Acinetobacter phage AP205 (Taxon ID: 154784)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.11 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8TOC validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Coat protein
Chain IDs:D (auth: AB), E (auth: AC), F (auth: AE), G (auth: AF), H (auth: AG), I (auth: AH), J (auth: AI), K (auth: AJ), L (auth: AK), M (auth: AL), N (auth: AM), O (auth: AN), P (auth: AO), Q (auth: AP), R (auth: AQ), S (auth: Ac), T (auth: AS), U (auth: AT), V (auth: AU), W (auth: AV), X (auth: AW), Y (auth: AX), Z (auth: AY), AA (auth: AZ), BA, CA (auth: BB), DA (auth: BC), EA (auth: BD), FA (auth: BE), GA (auth: BF), HA (auth: BG), IA (auth: BH), JA (auth: BI), KA (auth: BJ), LA (auth: BK), MA (auth: BL), NA (auth: BM), OA (auth: BN), PA (auth: BO), QA (auth: BP), RA (auth: BQ), SA (auth: Bc), TA (auth: BS), UA (auth: BT), VA (auth: BU), WA (auth: BV), XA (auth: BW), YA (auth: BX), ZA (auth: BY), AB (auth: BZ), BB (auth: CA), CB, DB (auth: CC), EB (auth: CD), FB (auth: CE), GB (auth: CF), HB (auth: CG), IB (auth: CH), JB (auth: CI), KB (auth: CJ), LB (auth: CK), MB (auth: CL), NB (auth: CM), OB (auth: CN), PB (auth: CO), QB (auth: CP), RB (auth: CQ), SB (auth: Cc), TB (auth: CS), UB (auth: CT), VB (auth: CU), WB (auth: CV), XB (auth: CW), YB (auth: CX), ZB (auth: CY), AC (auth: CZ), BC (auth: DA), CC (auth: DB), DC, EC (auth: DD), FC (auth: DE), GC (auth: DF), HC (auth: DG), IC (auth: DH), JC (auth: DI), KC (auth: DJ), LC (auth: DK), MC (auth: DL), NC (auth: DM), OC (auth: DN), PC (auth: DO), QC (auth: DQ), RC (auth: Dc), SC (auth: DS), TC (auth: DT), UC (auth: DU), VC (auth: DV), WC (auth: DW), XC (auth: DX), YC (auth: DY), ZC (auth: DZ), AD (auth: EA), BD (auth: EB), CD (auth: EC), DD (auth: ED), ED (auth: EE), FD (auth: EF), GD (auth: EG), HD (auth: EH), ID (auth: EI), JD (auth: EJ), KD (auth: EK), LD (auth: EL), MD (auth: EM), ND (auth: EN), OD (auth: EO), PD (auth: EP), QD (auth: EQ), RD (auth: Ec), SD (auth: ES), TD (auth: ET), UD (auth: EU), VD (auth: EV), WD (auth: EW), XD (auth: EX), YD (auth: EY), ZD (auth: EZ), AE (auth: FA), BE (auth: FB), CE (auth: FC), DE (auth: FD), EE (auth: FE), FE (auth: FF), GE (auth: FG), HE (auth: FH), IE (auth: FI), JE (auth: FJ), KE (auth: FK), LE (auth: FL), ME (auth: FM), NE (auth: FN), OE (auth: FO), PE (auth: FP), QE (auth: FQ), RE (auth: Fc), SE (auth: FS), TE (auth: FT), UE (auth: FU), VE (auth: FV), WE (auth: FW), XE (auth: FX), YE (auth: FY), ZE (auth: FZ), AF (auth: GA), BF (auth: GB), CF (auth: GC), DF (auth: GD), EF (auth: GE), FF (auth: GF), GF (auth: GG), HF (auth: GH), IF (auth: GI), JF (auth: GJ), KF (auth: GK), LF (auth: GL), MF (auth: GM), NF (auth: GN), OF (auth: GO), PF (auth: GP), QF (auth: GQ), RF (auth: Gc), SF (auth: GS), TF (auth: GT), UF (auth: GU), VF (auth: GV), WF (auth: GW), XF (auth: GX), YF (auth: GY)
Chain Length:129
Number of Molecules:178
Biological Source:Acinetobacter phage AP205
UniProt ID:Q9AZ42 Pfam ID:PF22169
Polymer Type:polyribonucleotide
Molecule:RNA (4269-MER)
Chain IDs:A (auth: R)
Chain Length:4269
Number of Molecules:1
Biological Source:Bacteria abnormis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Maturation protein
Chain IDs:B (auth: a), C (auth: b)
Chain Length:534
Number of Molecules:2
Biological Source:Acinetobacter phage AP205
UniProt ID:Q9AZ43 Pfam ID:PF03863
Primary Citation
Structural basis of Acinetobacter type IV pili targeting by an RNA virus.
Nat Commun 15 2746 2746 (2024)
PMID: 38553443 DOI: 10.1038/s41467-024-47119-5

Abstact

Acinetobacters pose a significant threat to human health, especially those with weakened immune systems. Type IV pili of acinetobacters play crucial roles in virulence and antibiotic resistance. Single-stranded RNA bacteriophages target the bacterial retractile pili, including type IV. Our study delves into the interaction between Acinetobacter phage AP205 and type IV pili. Using cryo-electron microscopy, we solve structures of the AP205 virion with an asymmetric dimer of maturation proteins, the native Acinetobacter type IV pili bearing a distinct post-translational pilin cleavage, and the pili-bound AP205 showing its maturation proteins adapted to pilin modifications, allowing each phage to bind to one or two pili. Leveraging these results, we develop a 20-kilodalton AP205-derived protein scaffold targeting type IV pili in situ, with potential for research and diagnostics.

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