9ZDW | pdb_00009zdw

Pseudomonas phage DEV delta-gp53 mutant neck and tail (portal, head-to-tail and tail tube proteins)

• PDB DOI: https://doi.org/10.2210/pdb9ZDW/pdb
• EM Map EMD-74075: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Pseudomonas phage vB_PaeP_DEV
• Mutation(s): No 


• Deposited: 2025-11-26 Released: 2026-01-21 
• Deposition Author(s): Bellis, N.F., Cingolani, G.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Pseudomonas aeruginosa DEV phage exploits the essential LptD outer membrane protein as receptor for adsorption

Noblecia, J.N., Bellis, F.N., Antichi, C., Aminian, S., Forti, F., Falchi, F., Bellis, N.F., Imperi, F., Cingolani, G., Briani, F.

(2026) mBio 

• DOI: https://doi.org/10.1128/mbio.03561-25

Biological Assembly 1  

Global Symmetry: Cyclic - C12  (Explore in 3D)
Global Stoichiometry: Hetero 36-mer - A12B12C12 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 1,738.51 kDa 
• Atom Count: 98,304 
• Modeled Residue Count: 12,636 
• Deposited Residue Count: 15,492 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
gp80 portal protein	A [auth PA], BA [auth PJ], D [auth PB], EA [auth PK], G [auth PC], HA [auth PL], J [auth PD], M [auth PE], P [auth PF], S [auth PG], V [auth PH], Y [auth PI]	726	Pseudomonas phage vB_PaeP_DEV	Mutation(s): 0
UniProt
Find proteins for A0A2K8IC08 (Pseudomonas phage vB_PaeP_DEV) Explore A0A2K8IC08  Go to UniProtKB:  A0A2K8IC08

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
gp75 tail tube	B [auth TA], CA [auth TJ], E [auth TB], FA [auth TK], H [auth TC], IA [auth TL], K [auth TD], N [auth TE], Q [auth TF], T [auth TG], W [auth TH], Z [auth TI]	321	Pseudomonas phage vB_PaeP_DEV	Mutation(s): 0
UniProt
Find proteins for A0A2K8I3N9 (Pseudomonas phage vB_PaeP_DEV) Explore A0A2K8I3N9  Go to UniProtKB:  A0A2K8I3N9

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
gp83 head-to-tail	AA [auth AI], C [auth AA], DA [auth AJ], F [auth AB], GA [auth AK], I [auth AC], JA [auth AL], L [auth AD], O [auth AE], R [auth AF], U [auth AG], X [auth AH]	244	Pseudomonas phage vB_PaeP_DEV	Mutation(s): 0
UniProt
Find proteins for A0A2K8I0C0 (Pseudomonas phage vB_PaeP_DEV) Explore A0A2K8I0C0  Go to UniProtKB:  A0A2K8I0C0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-21 
Deposition Author(s): Bellis, N.F., Cingolani, G.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History  

• Version 1.0: 2026-01-21
  Type: Initial release