8TOC

Acinetobacter phage AP205


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.11 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis of Acinetobacter type IV pili targeting by an RNA virus.

Meng, R.Xing, Z.Chang, J.Y.Yu, Z.Thongchol, J.Xiao, W.Wang, Y.Chamakura, K.Zeng, Z.Wang, F.Young, R.Zeng, L.Zhang, J.

(2024) Nat Commun 15: 2746-2746

  • DOI: https://doi.org/10.1038/s41467-024-47119-5
  • Primary Citation of Related Structures:  
    8TOB, 8TOC, 8TV9, 8TVA, 8TW2, 8TWC

  • PubMed Abstract: 

    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.


  • Organizational Affiliation

    Center for Phage Technology, Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Maturation proteinB [auth a],
C [auth b]
534Acinetobacter phage AP205Mutation(s): 0 
UniProt
Find proteins for Q9AZ43 (Acinetobacter phage AP205)
Explore Q9AZ43 
Go to UniProtKB:  Q9AZ43
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9AZ43
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Coat protein
AA [auth AZ],
AB [auth BZ],
AC [auth CZ],
AD [auth EA],
AE [auth FA],
AF [auth GA],
BA,
BB [auth CA],
BC [auth DA],
BD [auth EB],
BE [auth FB],
BF [auth GB],
CA [auth BB],
CB,
CC [auth DB],
CD [auth EC],
CE [auth FC],
CF [auth GC],
D [auth AB],
DA [auth BC],
DB [auth CC],
DC,
DD [auth ED],
DE [auth FD],
DF [auth GD],
E [auth AC],
EA [auth BD],
EB [auth CD],
EC [auth DD],
ED [auth EE],
EE [auth FE],
EF [auth GE],
F [auth AE],
FA [auth BE],
FB [auth CE],
FC [auth DE],
FD [auth EF],
FE [auth FF],
FF [auth GF],
G [auth AF],
GA [auth BF],
GB [auth CF],
GC [auth DF],
GD [auth EG],
GE [auth FG],
GF [auth GG],
H [auth AG],
HA [auth BG],
HB [auth CG],
HC [auth DG],
HD [auth EH],
HE [auth FH],
HF [auth GH],
I [auth AH],
IA [auth BH],
IB [auth CH],
IC [auth DH],
ID [auth EI],
IE [auth FI],
IF [auth GI],
J [auth AI],
JA [auth BI],
JB [auth CI],
JC [auth DI],
JD [auth EJ],
JE [auth FJ],
JF [auth GJ],
K [auth AJ],
KA [auth BJ],
KB [auth CJ],
KC [auth DJ],
KD [auth EK],
KE [auth FK],
KF [auth GK],
L [auth AK],
LA [auth BK],
LB [auth CK],
LC [auth DK],
LD [auth EL],
LE [auth FL],
LF [auth GL],
M [auth AL],
MA [auth BL],
MB [auth CL],
MC [auth DL],
MD [auth EM],
ME [auth FM],
MF [auth GM],
N [auth AM],
NA [auth BM],
NB [auth CM],
NC [auth DM],
ND [auth EN],
NE [auth FN],
NF [auth GN],
O [auth AN],
OA [auth BN],
OB [auth CN],
OC [auth DN],
OD [auth EO],
OE [auth FO],
OF [auth GO],
P [auth AO],
PA [auth BO],
PB [auth CO],
PC [auth DO],
PD [auth EP],
PE [auth FP],
PF [auth GP],
Q [auth AP],
QA [auth BP],
QB [auth CP],
QC [auth DQ],
QD [auth EQ],
QE [auth FQ],
QF [auth GQ],
R [auth AQ],
RA [auth BQ],
RB [auth CQ],
RC [auth Dc],
RD [auth Ec],
RE [auth Fc],
RF [auth Gc],
S [auth Ac],
SA [auth Bc],
SB [auth Cc],
SC [auth DS],
SD [auth ES],
SE [auth FS],
SF [auth GS],
T [auth AS],
TA [auth BS],
TB [auth CS],
TC [auth DT],
TD [auth ET],
TE [auth FT],
TF [auth GT],
U [auth AT],
UA [auth BT],
UB [auth CT],
UC [auth DU],
UD [auth EU],
UE [auth FU],
UF [auth GU],
V [auth AU],
VA [auth BU],
VB [auth CU],
VC [auth DV],
VD [auth EV],
VE [auth FV],
VF [auth GV],
W [auth AV],
WA [auth BV],
WB [auth CV],
WC [auth DW],
WD [auth EW],
WE [auth FW],
WF [auth GW],
X [auth AW],
XA [auth BW],
XB [auth CW],
XC [auth DX],
XD [auth EX],
XE [auth FX],
XF [auth GX],
Y [auth AX],
YA [auth BX],
YB [auth CX],
YC [auth DY],
YD [auth EY],
YE [auth FY],
YF [auth GY],
Z [auth AY],
ZA [auth BY],
ZB [auth CY],
ZC [auth DZ],
ZD [auth EZ],
ZE [auth FZ]
129Acinetobacter phage AP205Mutation(s): 0 
UniProt
Find proteins for Q9AZ42 (Acinetobacter phage AP205)
Explore Q9AZ42 
Go to UniProtKB:  Q9AZ42
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9AZ42
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains LengthOrganismImage
RNA (4269-MER)A [auth R]4,269Bacteria abnormis
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.11 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States1R01GM141659

Revision History  (Full details and data files)

  • Version 1.0: 2024-03-06
    Type: Initial release
  • Version 1.1: 2024-04-10
    Changes: Database references