ISDA

Deposition Date 2020-08-19

Release Date 2021-06-02

Last Version Date 2024-05-01

Entry Detail

PDB ID:

7A4I

Keywords:

VIRUS LIKE PARTICLE

Title:

Aquifex aeolicus lumazine synthase-derived nucleocapsid variant NC-3

Biological Source:

Source Organism:

Escherichia virus lambda (Taxon ID: 10710)
Aquifex aeolicus VF5 (Taxon ID: 224324)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

7.04 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Antitermination protein N,6,7-dimethyl-8-ribityllumazine synthase,6,7-dimethyl-8-ribityllumazine synthase
Gene (Uniprot):ribH, N
Chain IDs:A (auth: AA), B (auth: AB), C (auth: AC), D (auth: AD), E (auth: BA), F (auth: BB), G (auth: BC), H (auth: BD), I (auth: CA), J (auth: CB), K (auth: CC), L (auth: CD), M (auth: DA), N (auth: DB), O (auth: DC), P (auth: DD), Q (auth: EA), R (auth: EB), S (auth: EC), T (auth: ED), U (auth: FA), V (auth: FB), W (auth: FC), X (auth: FD), Y (auth: GA), Z (auth: GB), AA (auth: GC), BA (auth: GD), CA (auth: HA), DA (auth: HB), EA (auth: HC), FA (auth: HD), GA (auth: IA), HA (auth: IB), IA (auth: IC), JA (auth: ID), KA (auth: 5A), LA (auth: 5B), MA (auth: 5C), NA (auth: 5D), OA (auth: JA), PA (auth: JB), QA (auth: JC), RA (auth: JD), SA (auth: KA), TA (auth: KB), UA (auth: KC), VA (auth: KD), WA (auth: LA), XA (auth: LB), YA (auth: LC), ZA (auth: LD), AB (auth: MA), BB (auth: MB), CB (auth: MC), DB (auth: MD), EB (auth: NA), FB (auth: NB), GB (auth: NC), HB (auth: ND), IB (auth: OA), JB (auth: OB), KB (auth: OC), LB (auth: OD), MB (auth: PA), NB (auth: PB), OB (auth: PC), PB (auth: PD), QB (auth: 6A), RB (auth: 6B), SB (auth: 6C), TB (auth: 6D), UB (auth: 7A), VB (auth: 7B), WB (auth: 7C), XB (auth: 7D), YB (auth: QA), ZB (auth: QB), AC (auth: QC), BC (auth: QD), CC (auth: RA), DC (auth: RB), EC (auth: RC), FC (auth: RD), GC (auth: SA), HC (auth: SB), IC (auth: SC), JC (auth: SD), KC (auth: TA), LC (auth: TB), MC (auth: TC), NC (auth: TD), OC (auth: UA), PC (auth: UB), QC (auth: UC), RC (auth: UD), SC (auth: VA), TC (auth: VB), UC (auth: VC), VC (auth: VD), WC (auth: WA), XC (auth: WB), YC (auth: WC), ZC (auth: WD), AD (auth: XA), BD (auth: XB), CD (auth: XC), DD (auth: XD), ED (auth: YA), FD (auth: YB), GD (auth: YC), HD (auth: YD), ID (auth: ZA), JD (auth: ZB), KD (auth: ZC), LD (auth: ZD), MD (auth: aA), ND (auth: aB), OD (auth: aC), PD (auth: aD), QD (auth: bA), RD (auth: bB), SD (auth: bC), TD (auth: bD), UD (auth: cA), VD (auth: cB), WD (auth: cC), XD (auth: cD), YD (auth: dA), ZD (auth: dB), AE (auth: dC), BE (auth: dD), CE (auth: eA), DE (auth: eB), EE (auth: eC), FE (auth: eD), GE (auth: fA), HE (auth: fB), IE (auth: fC), JE (auth: fD), KE (auth: gA), LE (auth: gB), ME (auth: gC), NE (auth: gD), OE (auth: hA), PE (auth: hB), QE (auth: hC), RE (auth: hD), SE (auth: iA), TE (auth: iB), UE (auth: iC), VE (auth: iD), WE (auth: jA), XE (auth: jB), YE (auth: jC), ZE (auth: jD), AF (auth: kA), BF (auth: kB), CF (auth: kC), DF (auth: kD), EF (auth: lA), FF (auth: lB), GF (auth: lC), HF (auth: lD), IF (auth: mA), JF (auth: mB), KF (auth: mC), LF (auth: mD), MF (auth: nA), NF (auth: nB), OF (auth: nC), PF (auth: nD), QF (auth: oA), RF (auth: oB), SF (auth: oC), TF (auth: oD), UF (auth: pA), VF (auth: pB), WF (auth: pC), XF (auth: pD), YF (auth: qA), ZF (auth: qB), AG (auth: qC), BG (auth: qD), CG (auth: rA), DG (auth: rB), EG (auth: rC), FG (auth: rD), GG (auth: sA), HG (auth: sB), IG (auth: sC), JG (auth: sD), KG (auth: tA), LG (auth: tB), MG (auth: tC), NG (auth: tD), OG (auth: uA), PG (auth: uB), QG (auth: uC), RG (auth: uD), SG (auth: vA), TG (auth: vB), UG (auth: vC), VG (auth: vD), WG (auth: wA), XG (auth: wB), YG (auth: wC), ZG (auth: wD), AH (auth: xA), BH (auth: xB), CH (auth: xC), DH (auth: xD), EH (auth: yA), FH (auth: yB), GH (auth: yC), HH (auth: yD), IH (auth: zA), JH (auth: zB), KH (auth: zC), LH (auth: zD), MH (auth: 0A), NH (auth: 0B), OH (auth: 0C), PH (auth: 0D), QH (auth: 1A), RH (auth: 1B), SH (auth: 1C), TH (auth: 1D), UH (auth: 2A), VH (auth: 2B), WH (auth: 2C), XH (auth: 2D), YH (auth: 3A), ZH (auth: 3B), AI (auth: 3C), BI (auth: 3D), CI (auth: 4A), DI (auth: 4B), EI (auth: 4C), FI (auth: 4D)
Chain Length:197
Number of Molecules:240
Biological Source:Escherichia virus lambda, Aquifex aeolicus VF5

UniProt ID:P03045,O66529 Pfam ID:PF11438, PF00885 EC:2.5.1.78

Ligand Molecules

Primary Citation

Evolution of a virus-like architecture and packaging mechanism in a repurposed bacterial protein.

Tetter, S, Terasaka, N, Steinauer, A, Bingham, R.J, Clark, S, Scott, A.J.P, Patel, N, Leibundgut, M, Wroblewski, E, Ban, N, Stockley, P.G, Twarock, R, Hilvert, D, Tetter, S, Terasaka, N, Steinauer, A, Bingham, R.J, Clark, S, Scott, A.J.P, Patel, N, Leibundgut, M, Wroblewski, E, Ban, N, Stockley, P.G, Twarock, R, Hilvert, D.Show

Science 372 1220 1224 (2021)

PMID: 34112695 DOI: 10.1126/science.abg2822

Abstact

Viruses are ubiquitous pathogens of global impact. Prompted by the hypothesis that their earliest progenitors recruited host proteins for virion formation, we have used stringent laboratory evolution to convert a bacterial enzyme that lacks affinity for nucleic acids into an artificial nucleocapsid that efficiently packages and protects multiple copies of its own encoding messenger RNA. Revealing remarkable convergence on the molecular hallmarks of natural viruses, the accompanying changes reorganized the protein building blocks into an interlaced 240-subunit icosahedral capsid that is impermeable to nucleases, and emergence of a robust RNA stem-loop packaging cassette ensured high encapsidation yields and specificity. In addition to evincing a plausible evolutionary pathway for primordial viruses, these findings highlight practical strategies for developing nonviral carriers for diverse vaccine and delivery applications.

Legend

Protein

Chemical

Disease

Primary Citation of related structures