8K39

Structure of the bacteriophage lambda portal vertex

• PDB DOI:  https://doi.org/10.2210/pdb8K39/pdb
• EM Map EMD-36848: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Escherichia phage Lambda
• Mutation(s): No 


• Deposited: 2023-07-14 Released: 2023-11-15 
• Deposition Author(s): Xiao, H., Tan, L., Cheng, L.P., Liu, H.R.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Symmetry-mismatch structure of the bacteriophage lambda

Xiao, H., Tan, L., Cheng, L.P., Liu, H.R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 42-mer - A30B12 

Local Symmetry: Cyclic - C5  (Explore in 3D)
Local Stoichiometry: Homo 30-mer - A30 Local Symmetry: Cyclic - C12  (Explore in 3D)
Local Stoichiometry: Homo 12-mer - B12 Local Symmetry: Cyclic - C6  (Explore in 3D)
Local Stoichiometry: Homo 6-mer - A6 Local Symmetry: Cyclic - C6  (Explore in 3D)
Local Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 1,861.23 kDa 
• Atom Count: 124,618 
• Modelled Residue Count: 15,849 
• Deposited Residue Count: 16,626 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A [auth 0], AA [auth S], B [auth 1], BA [auth T], C [auth 2], D [auth 3], E [auth 4], F [auth 5], G [auth 6], H [auth 7], I [auth A], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F], O [auth G], OA [auth g], P [auth H], PA [auth h], Q [auth I], R [auth J], S [auth K], T [auth L], U [auth M], V [auth N], W [auth O], X [auth P], Y [auth Q], Z [auth R]	341	Escherichia phage Lambda	Mutation(s): 0
UniProt
Find proteins for P03713 (Escherichia phage lambda) Explore P03713  Go to UniProtKB:  P03713

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Portal protein B	CA [auth U], DA [auth V], EA [auth W], FA [auth X], GA [auth Y], HA [auth Z], IA [auth a], JA [auth b], KA [auth c], LA [auth d], MA [auth e], NA [auth f]	533	Escherichia phage Lambda	Mutation(s): 0  Gene Names: B, lambdap04
UniProt
Find proteins for P03710 (Escherichia phage lambda) Explore P03710  Go to UniProtKB:  P03710

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-15 
Deposition Author(s): Xiao, H., Tan, L., Cheng, L.P., Liu, H.R.

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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	32071209
National Natural Science Foundation of China (NSFC)	China	31971122
National Natural Science Foundation of China (NSFC)	China	32200994

Revision History  

• Version 1.0: 2023-11-15
  Type: Initial release