8XMH

Potassium transporter KtrAB from Bacillus subtilis in ATP-bound state with addition of EDTA and EGTA, vertical C2 symmetry axis

PDB DOI: https://doi.org/10.2210/pdb8XMH/pdb
EM Map EMD-38477: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-12-27 Released: 2024-04-03
Deposition Author(s): Chang, Y.K., Chiang, W.T., Hu, N.J., Tsai, M.D.
Funding Organization(s): Academia Sinica (Taiwan)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.85 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Potassium transporter KtrAB from Bacillus subtilis in ATP-bound state with addition of EDTA and EGTA, vertical C2 symmetry axis

Chang, Y.K., Chiang, W.T., Hu, N.J., Tsai, M.D.

To be published.

Macromolecule Content

Total Structure Weight: 397.53 kDa
Atom Count: 26,948
Modelled Residue Count: 3,444
Deposited Residue Count: 3,556
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ktr system potassium uptake protein A	A, B, C, D, E A, B, C, D, E, F, G, H	222	Bacillus subtilis	Mutation(s): 0 Gene Names: ktrA, yuaA, BSU31090
UniProt
Find proteins for O32080 (Bacillus subtilis (strain 168)) Explore O32080 Go to UniProtKB: O32080
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O32080
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Ktr system potassium uptake protein B	I, J, K, L	445	Bacillus subtilis	Mutation(s): 0 Gene Names: ktrB, yubG, BSU31100
UniProt
Find proteins for O32081 (Bacillus subtilis (strain 168)) Explore O32081 Go to UniProtKB: O32081
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O32081
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP (Subject of Investigation/LOI) Query on ATP Download Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain O [auth B] SDF format, chain P [auth C] SDF format, chain R [auth D] SDF format, chain S [auth E] SDF format, chain U [auth F] SDF format, chain V [auth G] SDF format, chain X [auth H] MOL2 format, chain M [auth A] MOL2 format, chain O [auth B] MOL2 format, chain P [auth C] MOL2 format, chain R [auth D] MOL2 format, chain S [auth E] MOL2 format, chain U [auth F] MOL2 format, chain V [auth G] MOL2 format, chain X [auth H]	M [auth A] O [auth B] P [auth C] R [auth D] S [auth E] M [auth A], O [auth B], P [auth C], R [auth D], S [auth E], U [auth F], V [auth G], X [auth H]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain M [auth A] Focus chain O [auth B] Focus chain P [auth C] Focus chain R [auth D] Focus chain S [auth E] Focus chain U [auth F] Focus chain V [auth G] Focus chain X [auth H] Interactions & Density Focus chain M [auth A] Focus chain O [auth B] Focus chain P [auth C] Focus chain R [auth D] Focus chain S [auth E] Focus chain U [auth F] Focus chain V [auth G] Focus chain X [auth H]
K (Subject of Investigation/LOI) Query on K Download Ideal Coordinates CCD File SDF format, chain AA [auth K] SDF format, chain BA [auth L] SDF format, chain Y [auth I] SDF format, chain Z [auth J] MOL2 format, chain AA [auth K] MOL2 format, chain BA [auth L] MOL2 format, chain Y [auth I] MOL2 format, chain Z [auth J]	AA [auth K], BA [auth L], Y [auth I], Z [auth J]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain AA [auth K] Focus chain BA [auth L] Focus chain Y [auth I] Focus chain Z [auth J] Interactions & Density Focus chain AA [auth K] Focus chain BA [auth L] Focus chain Y [auth I] Focus chain Z [auth J]
NA (Subject of Investigation/LOI) Query on NA Download Ideal Coordinates CCD File SDF format, chain N [auth A] SDF format, chain Q [auth D] SDF format, chain T [auth E] SDF format, chain W [auth H] MOL2 format, chain N [auth A] MOL2 format, chain Q [auth D] MOL2 format, chain T [auth E] MOL2 format, chain W [auth H]	N [auth A], Q [auth D], T [auth E], W [auth H]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain N [auth A] Focus chain Q [auth D] Focus chain T [auth E] Focus chain W [auth H] Interactions & Density Focus chain N [auth A] Focus chain Q [auth D] Focus chain T [auth E] Focus chain W [auth H]