9Q1A | pdb_00009q1a

Open state of lysine 5,6-aminomutase from Thermoanaerobacter tengcongensis

• PDB DOI: https://doi.org/10.2210/pdb9Q1A/pdb
• Entry: 9Q1A supersedes: 8T0Q
• EM Map EMD-72121: EMDB EMDataResource

• Classification: ISOMERASE
• Organism(s): Caldanaerobacter subterraneus subsp. tengcongensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-08-13 Released: 2025-09-03 
• Deposition Author(s): Tian, S., Tjia-Fleck, S.
• 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: 2.83 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Catalysis in Motion: Large-Scale Domain Alternation Enables Co(III)-C Bond Homolysis in Lysine 5,6-Aminomutase

Tian, S., Tjia-Fleck, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 176.28 kDa 
• Atom Count: 12,355 
• Modeled Residue Count: 1,547 
• Deposited Residue Count: 1,548 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-lysine 5,6-aminomutase beta subunit	A, B	257	Caldanaerobacter subterraneus subsp. tengcongensis	Mutation(s): 0  Gene Names: TTE0727
UniProt
Find proteins for Q8RBT2 (Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4)) Explore Q8RBT2  Go to UniProtKB:  Q8RBT2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
D-lysine 5,6-aminomutase alpha subunit	C, D	517	Caldanaerobacter subterraneus subsp. tengcongensis	Mutation(s): 0  Gene Names: TTE0726
UniProt
Find proteins for Q8RBT3 (Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4)) Explore Q8RBT3  Go to UniProtKB:  Q8RBT3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B12 (Subject of Investigation/LOI)	E [auth A], F [auth B]	COBALAMIN C62 H89 Co N13 O14 P LKVIQTCSMMVGFU-DWSMJLPVSA-N
5AD (Subject of Investigation/LOI)	G [auth C], H [auth D]	5'-DEOXYADENOSINE C10 H13 N5 O3 XGYIMTFOTBMPFP-KQYNXXCUSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP	A, B	L-PEPTIDE LINKING	C14 H22 N3 O7 P		LYS

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.83 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: 2025-09-03 
Deposition Author(s): Tian, S., Tjia-Fleck, S.
• This entry supersedes: 8T0Q

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35 GM155016

Revision History  

• Version 1.0: 2025-09-03
  Type: Initial release
  
• Version 1.1: 2025-09-10
  Changes: Advisory, Data collection