9AY5 | pdb_00009ay5

Tail-Baseplate of P1 bacteriophage

• PDB DOI: https://doi.org/10.2210/pdb9AY5/pdb
• EM Map EMD-43960: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Escherichia phage P1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-03-07 Released: 2025-09-10 
• Deposition Author(s): Nakamura, T., Sen, A., Terashi, G., Kihara, D.
• 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: 6.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Baseplate of P1 bacteriophage

Nakamura, T., Sen, A., Terashi, G., Kihara, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Hetero 90-mer - A30B18C12D6E6F6G6H6 Pseudo Symmetry: Cyclic - C6  (Explore in 3D)
Pseudo Stoichiometry: Hetero 90-mer - A30B24C6D6E6F6G6H6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 3,304.2 kDa 
• Atom Count: 225,414 
• Modeled Residue Count: 29,202 
• Deposited Residue Count: 30,138 
• Unique protein chains: 8

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tub	A, B, C, D, E, F	203	Escherichia phage P1	Mutation(s): 0  Gene Names: tub
UniProt
Find proteins for Q71TC8 (Escherichia phage P1) Explore Q71TC8  Go to UniProtKB:  Q71TC8

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PmgG	G, H, I, J, K, L	193	Escherichia phage P1	Mutation(s): 0  Gene Names: pmgG
UniProt
Find proteins for Q71TM4 (Escherichia phage P1) Explore Q71TM4  Go to UniProtKB:  Q71TM4

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
PmgA	M, N, O, P, Q, R	118	Escherichia phage P1	Mutation(s): 0  Gene Names: pmgA
UniProt
Find proteins for Q71TP1 (Escherichia phage P1) Explore Q71TP1  Go to UniProtKB:  Q71TP1

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Gp26	S, T, U, V, W, X	125	Escherichia phage P1	Mutation(s): 0  Gene Names: 26
UniProt
Find proteins for Q71T87 (Escherichia phage P1) Explore Q71T87  Go to UniProtKB:  Q71T87

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
BplA	AA [auth 0], BA [auth 1], CA [auth 2], DA [auth 3], EA [auth 4], FA [auth 5], GA [auth 6], HA [auth 7], IA [auth 8], JA [auth 9], Y, Z	477	Escherichia phage P1	Mutation(s): 0  Gene Names: bplA
UniProt
Find proteins for Q71TD2 (Escherichia phage P1) Explore Q71TD2  Go to UniProtKB:  Q71TD2

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Gp16	KA [auth a], LA [auth b], MA [auth c], NA [auth d], OA [auth e], PA [auth f]	278	Escherichia phage P1	Mutation(s): 0  Gene Names: 16
UniProt
Find proteins for Q71TD3 (Escherichia phage P1) Explore Q71TD3  Go to UniProtKB:  Q71TD3

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Gp22	AB [auth q], BB [auth r], CB [auth AA], DB [auth BA], EB [auth CA], FB [auth DA], GB [auth EA], HB [auth FA], IB [auth GA], JB [auth HA], KB [auth IA], LB [auth JA], MB [auth KA], NB [auth LA], OB [auth MA], PB [auth NA], QA [auth g], QB [auth OA], RA [auth h], RB [auth PA], SA [auth i], SB [auth QA], TA [auth j], TB [auth RA], UA [auth k], VA [auth l], WA [auth m], XA [auth n], YA [auth o], ZA [auth p]	529	Escherichia phage P1	Mutation(s): 0  Gene Names: 22
UniProt
Find proteins for Q71TB2 (Escherichia phage P1) Explore Q71TB2  Go to UniProtKB:  Q71TB2

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
BplB	AC [auth GB], BC [auth HB], CC [auth IB], DC [auth JB], EC [auth KB], FC [auth LB], GC [auth MB], HC [auth NB], IC [auth OB], JC [auth PB], KC [auth QB], LC [auth RB], UB [auth AB], VB [auth BB], WB [auth CB], XB [auth DB], YB [auth EB], ZB [auth FB]	169	Escherichia phage P1	Mutation(s): 0  Gene Names: bplB
UniProt
Find proteins for Q71TB5 (Escherichia phage P1) Explore Q71TB5  Go to UniProtKB:  Q71TB5

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 6.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-09-10 
Deposition Author(s): Nakamura, T., Sen, A., Terashi, G., Kihara, D.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM133840

Revision History  

• Version 1.0: 2025-09-10
  Type: Initial release