9XQD | pdb_00009xqd

The structure of outer peripheral region in the phage phiKZ baseplate complex

• PDB DOI: https://doi.org/10.2210/pdb9XQD/pdb
• EM Map EMD-67111: EMDB EMDataResource

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


• Deposited: 2025-11-18 Released: 2026-02-11 
• Deposition Author(s): Xiao, H., Peng, Z., Zhou, J., Liu, H.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.53 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural atlas of the intact jumbo phage phiKZ

Xiao, H., Peng, Z., Zhou, J., Liu, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 23-mer - A6B4C3D2E2F2G1H1I1J1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 23-mer - A6B6C2D2E2F2G1H1I1 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - F2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 1,217.05 kDa 
• Atom Count: 71,157 
• Modeled Residue Count: 8,852 
• Deposited Residue Count: 10,710 
• Unique protein chains: 6

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ026	A [auth a], B [auth b], C [auth c], D [auth d], E [auth e], F [auth f]	552	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SDD6 (Pseudomonas phage phiKZ) Explore Q8SDD6  Go to UniProtKB:  Q8SDD6

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ027	G, H [auth K]	898	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SDD5 (Pseudomonas phage phiKZ) Explore Q8SDD5  Go to UniProtKB:  Q8SDD5

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ127	I [auth 0]	290	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SD35 (Pseudomonas phage phiKZ) Explore Q8SD35  Go to UniProtKB:  Q8SD35

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ130	J [auth L], K [auth H]	427	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SD32 (Pseudomonas phage phiKZ) Explore Q8SD32  Go to UniProtKB:  Q8SD32

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ139	L [auth 1], M [auth 2], N [auth 3], O [auth 4], P [auth 5], Q [auth 6]	298	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SD23 (Pseudomonas phage phiKZ) Explore Q8SD23  Go to UniProtKB:  Q8SD23

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
PHIKZ157	R [auth J], S [auth P], T, U [auth V], V [auth N], W [auth R]	445	Pseudomonas phage phiKZ	Mutation(s): 0
UniProt
Find proteins for Q8SD05 (Pseudomonas phage phiKZ) Explore Q8SD05  Go to UniProtKB:  Q8SD05

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.53 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-11 
Deposition Author(s): Xiao, H., Peng, Z., Zhou, J., Liu, H.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	12034006
National Natural Science Foundation of China (NSFC)	China	32430020
National Natural Science Foundation of China (NSFC)	China	32200994

Revision History  

• Version 1.0: 2026-02-11
  Type: Initial release