9BFF

Tyrocidine synthetase modules 1 and 2 crosslinked in the condensation state, complex C

• PDB DOI: https://doi.org/10.2210/pdb9BFF/pdb
• EM Map EMD-44495: EMDB EMDataResource

• Classification: ISOMERASE
• Organism(s): Brevibacillus parabrevis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-17 Released: 2024-10-09 
• Deposition Author(s): Heberlig, G.W., Burkart, M.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: 3.31 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Crosslinking intermodular condensation in non-ribosomal peptide biosynthesis

Heberlig, G.W., La Clair, J.J., Burkart, M.D.

(2024) Nature 

• DOI: https://doi.org/10.1038/s41586-024-08306-y

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 244.86 kDa 
• Atom Count: 12,814 
• Modelled Residue Count: 1,590 
• Deposited Residue Count: 2,150 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrocidine synthase 1	A	1,098	Brevibacillus parabrevis	Mutation(s): 0  Gene Names: tycA EC: 5.1.1.11
UniProt
Find proteins for P09095 (Brevibacillus parabrevis) Explore P09095  Go to UniProtKB:  P09095

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrocidine synthase 2	B	1,052	Brevibacillus parabrevis	Mutation(s): 0  Gene Names: tycB EC: 5.1.1.11
UniProt
Find proteins for O30408 (Brevibacillus parabrevis) Explore O30408  Go to UniProtKB:  O30408

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1AN7 (Subject of Investigation/LOI)	C [auth A]	(7S,10aR)-1-methyl-4-{4-[(5R)-1,1,5-trihydroxy-4,4-dimethyl-1,6,10,15-tetraoxo-2-oxa-7,11,14-triaza-1lambda~5~-phosphahexadecan-16-yl]phenyl}-3,5,6,7,8,9,10,10a-octahydrocycloocta[d]pyridazin-7-yl [(5R)-1,1,5-trihydroxy-4,4-dimethyl-1,6,10-trioxo-2-oxa-7,11-diaza-1lambda~5~-phosphatridecan-13-yl]carbamate (non-preferred name) C42 H68 N8 O17 P2 NIBTULRMWBVSTM-MEITYLAXSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.31 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-09 
Deposition Author(s): Heberlig, G.W., Burkart, M.D.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM095970

Revision History  

• Version 1.0: 2024-10-09
  Type: Initial release
  
• Version 1.1: 2024-11-20
  Changes: Data collection
• Version 1.2: 2024-12-18
  Changes: Data collection, Database references