7WMP

Tail structure of Helicobacter pylori bacteriophage KHP30

• PDB DOI: https://doi.org/10.2210/pdb7WMP/pdb
• EM Map EMD-32616: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Helicobacter phage KHP30
• Mutation(s): No 


• Deposited: 2022-01-15 Released: 2023-03-01 
• Deposition Author(s): Kamiya, R., Uchiyama, J., Matsuzaki, S., Murata, K., Iwasaki, K., Miyazaki, N.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

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Experimental Data Snapshot

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

Literature

Cryo-EM structure of Helicobacter pylori bacteriophage KHP30

Kamiya, R., Uchiyama, J., Matsuzaki, S., Murata, K., Iwasaki, K., Miyazaki, N.

To be published.

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: 1,463.83 kDa 
• Atom Count: 98,184 
• Modelled Residue Count: 12,204 
• Deposited Residue Count: 12,744 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Portal protein	A [auth a], B [auth b], C [auth c], D [auth d], E [auth e], F [auth f], G [auth g], H [auth h], I [auth i], J [auth j], K [auth k], L [auth l]	602	Helicobacter phage KHP30	Mutation(s): 0
UniProt
Find proteins for I7HHN4 (Helicobacter pylori bacteriophage KHP30) Explore I7HHN4  Go to UniProtKB:  I7HHN4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Adaptor protein gp12	M [auth m], N [auth n], O [auth o], P [auth p], Q [auth q], R [auth r], S [auth s], T [auth t], U [auth u], V [auth v], W [auth w], X [auth x]	195	Helicobacter phage KHP30	Mutation(s): 0
UniProt
Find proteins for I7HHN3 (Helicobacter pylori bacteriophage KHP30) Explore I7HHN3  Go to UniProtKB:  I7HHN3

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Nozzle protein gp25	AA [auth C], BA [auth D], CA [auth E], DA [auth F], EA [auth G], FA [auth H], GA [auth I], HA [auth J], IA [auth K], JA [auth L], Y [auth A], Z [auth B]	265	Helicobacter phage KHP30	Mutation(s): 0
UniProt
Find proteins for I7HFX1 (Helicobacter pylori bacteriophage KHP30) Explore I7HFX1  Go to UniProtKB:  I7HFX1

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
RECONSTRUCTION	RELION	3.0

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-01 
Deposition Author(s): Kamiya, R., Uchiyama, J., Matsuzaki, S., Murata, K., Iwasaki, K., Miyazaki, N.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	15K18521
Japan Society for the Promotion of Science (JSPS)	Japan	18K06154

Revision History  

• Version 1.0: 2023-03-01
  Type: Initial release
  
• Version 1.1: 2024-06-26
  Changes: Data collection