8TUX image
Deposition Date 2023-08-17
Release Date 2024-03-13
Last Version Date 2024-10-30
Entry Detail
PDB ID:
8TUX
Keywords:
VIRAL PROTEIN
Title:
Capsid of mature PP7 virion with 3'end region of PP7 genomic RNA
Biological Source:
Source Organism:
Pseudomonas phage PP7 (Taxon ID: 12023)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.90 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8TUX validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:3'end of PP7 genomic RNA
Chain IDs:A (auth: R)
Chain Length:95
Number of Molecules:1
Biological Source:Pseudomonas phage PP7
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Capsid protein
Chain IDs:D (auth: a1), E (auth: b1), F (auth: c1), G (auth: d1), H (auth: e1), I (auth: f1), J (auth: g1), K (auth: h1), L (auth: i1), M (auth: j1), N (auth: k1), O (auth: l1), P (auth: m1), Q (auth: n1), R (auth: o1), S (auth: p1), T (auth: q1), U (auth: r1), V (auth: s1), W (auth: t1), X (auth: u1), Y (auth: v1), Z (auth: w1), AA (auth: x1), BA (auth: y1), CA (auth: z1), DA (auth: A1), EA (auth: B1), FA (auth: C1), GA (auth: D1), HA (auth: E1), IA (auth: F1), JA (auth: G1), KA (auth: H1), LA (auth: I1), MA (auth: J1), NA (auth: K1), OA (auth: L1), PA (auth: M1), QA (auth: N1), RA (auth: O1), SA (auth: P1), TA (auth: Q1), UA (auth: R1), VA (auth: S1), WA (auth: T1), XA (auth: U1), YA (auth: V1), ZA (auth: W1), AB (auth: X1), BB (auth: Y1), CB (auth: Z1), DB (auth: 01), EB (auth: 11), FB (auth: 21), GB (auth: 31), HB (auth: 41), IB (auth: 51), JB (auth: 61), KB (auth: 71), LB (auth: A2), MB (auth: B2), NB (auth: C2), OB (auth: D2), PB (auth: E2), QB (auth: F2), RB (auth: G2), SB (auth: H2), TB (auth: I2), UB (auth: J2), VB (auth: K2), WB (auth: L2), XB (auth: M2), YB (auth: N2), ZB (auth: O2), AC (auth: P2), BC (auth: Q2), CC (auth: R2), DC (auth: S2), EC (auth: T2), FC (auth: U2), GC (auth: V2), HC (auth: W2), IC (auth: X2), JC (auth: Y2), KC (auth: Z2), LC (auth: a2), MC (auth: b2), NC (auth: c2), OC (auth: d2), PC (auth: e2), QC (auth: f2), RC (auth: g2), SC (auth: h2), TC (auth: i2), UC (auth: j2), VC (auth: k2), WC (auth: l2), XC (auth: m2), YC (auth: n2), ZC (auth: o2), AD (auth: p2), BD (auth: q2), CD (auth: r2), DD (auth: s2), ED (auth: t2), FD (auth: u2), GD (auth: v2), HD (auth: w2), ID (auth: x2), JD (auth: y2), KD (auth: z2), LD (auth: 02), MD (auth: 12), ND (auth: 22), OD (auth: 32), PD (auth: 42), QD (auth: 52), RD (auth: 62), SD (auth: 72), TD (auth: 82), UD (auth: 92), VD (auth: 2a), WD (auth: 2b), XD (auth: 2c), YD (auth: 2d), ZD (auth: 2e), AE (auth: 2f), BE (auth: 2g), CE (auth: 2h), DE (auth: 2i), EE (auth: 2j), FE (auth: 2k), GE (auth: 2l), HE (auth: 2m), IE (auth: 2n), JE (auth: 2o), KE (auth: 2p), LE (auth: 2q), ME (auth: 2r), NE (auth: 2s), OE (auth: 2t), PE (auth: 2u), QE (auth: 2v), RE (auth: 2w), SE (auth: 2x), TE (auth: 2y), UE (auth: 2z), VE (auth: 2A), WE (auth: 2B), XE (auth: 2C), YE (auth: 2D), ZE (auth: 2E), AF (auth: 2F), BF (auth: 2G), CF (auth: 2H), DF (auth: 2I), EF (auth: 2J), FF (auth: 2K), GF (auth: 2L), HF (auth: 2M), IF (auth: 2N), JF (auth: 2O), KF (auth: 2P), LF (auth: 2Q), MF (auth: 2R), NF (auth: 2S), OF (auth: 2T), PF (auth: 2U), QF (auth: 2V), RF (auth: 2W), SF (auth: 2X), TF (auth: 2Y), UF (auth: 2Z), VF (auth: aa), WF (auth: ab), XF (auth: ac), YF (auth: ad)
Chain Length:127
Number of Molecules:178
Biological Source:Pseudomonas phage PP7
UniProt ID:P03630 Pfam ID:PF09063
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Maturation protein A
Chain IDs:B (auth: m), C (auth: M)
Chain Length:448
Number of Molecules:2
Biological Source:Pseudomonas phage PP7
UniProt ID:Q38061 Pfam ID:PF03863
Ligand Molecules
NA
Primary Citation
Removal of Pseudomonas type IV pili by a small RNA virus.
Science 384 eadl0635 eadl0635 (2024)
PMID: 38574145 DOI: 10.1126/science.adl0635

Abstact

The retractile type IV pilus (T4P) is important for virulence of the opportunistic human pathogen Pseudomonas aeruginosa. The single-stranded RNA (ssRNA) phage PP7 binds to T4P and is brought to the cell surface through pilus retraction. Using fluorescence microscopy, we discovered that PP7 detaches T4P, which impairs cell motility and restricts the pathogen's virulence. Using cryo-electron microscopy, mutagenesis, optical trapping, and Langevin dynamics simulation, we resolved the structure of PP7, T4P, and the PP7/T4P complex and showed that T4P detachment is driven by the affinity between the phage maturation protein and its bound pilin, plus the pilus retraction force and speed, and pilus bending. Pilus detachment may be widespread among other ssRNA phages and their retractile pilus systems and offers new prospects for antibacterial prophylaxis and therapeutics.

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Primary Citation of related structures
8TUX