5LQP image
Deposition Date 2016-08-17
Release Date 2016-12-14
Last Version Date 2024-10-16
Entry Detail
PDB ID:
5LQP
Keywords:
VIRUS LIKE PARTICLE
Title:
Cryo-EM reconstruction of bacteriophage AP205 virus-like particles.
Biological Source:
Source Organism:
Acinetobacter phage AP205 (Taxon ID: 154784)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
6.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
5LQP validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Coat protein
Chain IDs:A (auth: AB), B (auth: AC), C (auth: AD), D (auth: AE), E (auth: AF), F (auth: AG), G (auth: AH), H (auth: AI), I (auth: AJ), J (auth: AK), K (auth: AL), L (auth: AM), M (auth: AN), N (auth: AO), O (auth: AP), P (auth: AQ), Q (auth: AR), R (auth: AS), S (auth: AT), T (auth: AU), U (auth: AV), V (auth: AW), W (auth: AX), X (auth: AY), Y (auth: AZ), Z (auth: BA), AA (auth: BB), BA (auth: BC), CA (auth: BD), DA (auth: BE), EA (auth: BF), FA (auth: BG), GA (auth: BH), HA (auth: BI), IA (auth: BJ), JA (auth: BK), KA (auth: BL), LA (auth: BM), MA (auth: BN), NA (auth: BO), OA (auth: BP), PA (auth: BQ), QA (auth: BR), RA (auth: BS), SA (auth: BT), TA (auth: BU), UA (auth: BV), VA (auth: BW), WA (auth: BX), XA (auth: BY), YA (auth: BZ), ZA (auth: CA), AB (auth: CB), BB (auth: CC), CB (auth: CD), DB (auth: CE), EB (auth: CF), FB (auth: CG), GB (auth: CH), HB (auth: CI), IB (auth: CJ), JB (auth: CK), KB (auth: CL), LB (auth: CM), MB (auth: CN), NB (auth: CO), OB (auth: CP), PB (auth: CQ), QB (auth: CR), RB (auth: CS), SB (auth: CT), TB (auth: CU), UB (auth: CV), VB (auth: CW), WB (auth: CX), XB (auth: CY), YB (auth: CZ), ZB (auth: DA), AC (auth: DB), BC (auth: DC), CC (auth: DD), DC (auth: DE), EC (auth: DF), FC (auth: DG), GC (auth: DH), HC (auth: DI), IC (auth: DJ), JC (auth: DK), KC (auth: DL), LC (auth: DM), MC (auth: DN), NC (auth: DO), OC (auth: DP), PC (auth: DQ), QC (auth: DR), RC (auth: DS), SC (auth: DT), TC (auth: DU), UC (auth: DV), VC (auth: DW), WC (auth: DX), XC (auth: DY), YC (auth: DZ), ZC (auth: EA), AD (auth: EB), BD (auth: EC), CD (auth: ED), DD (auth: EE), ED (auth: EF), FD (auth: EG), GD (auth: EH), HD (auth: EI), ID (auth: EJ), JD (auth: EK), KD (auth: EL), LD (auth: EM), MD (auth: EN), ND (auth: EO), OD (auth: EP), PD (auth: EQ), QD (auth: ER), RD (auth: ES), SD (auth: ET), TD (auth: EU), UD (auth: EV), VD (auth: EW), WD (auth: EX), XD (auth: EY), YD (auth: EZ), ZD (auth: FA), AE (auth: FB), BE (auth: FC), CE (auth: FD), DE (auth: FE), EE (auth: FF), FE (auth: FG), GE (auth: FH), HE (auth: FI), IE (auth: FJ), JE (auth: FK), KE (auth: FL), LE (auth: FM), ME (auth: FN), NE (auth: FO), OE (auth: FP), PE (auth: FQ), QE (auth: FR), RE (auth: FS), SE (auth: FT), TE (auth: FU), UE (auth: FV), VE (auth: FW), WE (auth: FX), XE (auth: FY), YE (auth: FZ), ZE (auth: GA), AF (auth: GB), BF (auth: GC), CF (auth: GD), DF (auth: GE), EF (auth: GF), FF (auth: GG), GF (auth: GH), HF (auth: GI), IF (auth: GJ), JF (auth: GK), KF (auth: GL), LF (auth: GM), MF (auth: GN), NF (auth: GO), OF (auth: GP), PF (auth: GQ), QF (auth: GR), RF (auth: GS), SF (auth: GT), TF (auth: GU), UF (auth: GV), VF (auth: GW), WF (auth: GX), XF (auth: GY)
Chain Length:129
Number of Molecules:180
Biological Source:Acinetobacter phage AP205
UniProt ID:Q9AZ42 Pfam ID:PF22169
Ligand Molecules
NA
Primary Citation
Structure of AP205 Coat Protein Reveals Circular Permutation in ssRNA Bacteriophages.
J. Mol. Biol. 428 4267 4279 (2016)
PMID: 27591890 DOI: 10.1016/j.jmb.2016.08.025

Abstact

AP205 is a single-stranded RNA bacteriophage that has a coat protein sequence not similar to any other known single-stranded RNA phage. Here, we report an atomic-resolution model of the AP205 virus-like particle based on a crystal structure of an unassembled coat protein dimer and a cryo-electron microscopy reconstruction of the assembled particle, together with secondary structure information from site-specific solid-state NMR data. The AP205 coat protein dimer adopts the conserved Leviviridae coat protein fold except for the N-terminal region, which forms a beta-hairpin in the other known single-stranded RNA phages. AP205 has a similar structure at the same location formed by N- and C-terminal beta-strands, making it a circular permutant compared to the other coat proteins. The permutation moves the coat protein termini to the most surface-exposed part of the assembled particle, which explains its increased tolerance to long N- and C-terminal fusions.

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Primary Citation of related structures
5LQP