9C4D

The structure of 4 MntR homodimers bound to the promoter sequence of mnep

PDB DOI: https://doi.org/10.2210/pdb9C4D/pdb
NAKB: 9C4D
EM Map EMD-45182: EMDB EMDataResource

Classification: GENE REGULATION
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-06-04 Released: 2024-08-14
Deposition Author(s): Shi, H., Fu, Y., Glasfeld, A., Ahuja, S.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.17 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

The structure of 4 MntR homodimers bound to the promoter sequence of mnep.

Shi, H., Fu, Y., Glasfeld, A., Ahuja, S.

To be published.

Macromolecule Content

Total Structure Weight: 182.65 kDa
Atom Count: 12,493
Modelled Residue Count: 1,274
Deposited Residue Count: 1,290
Unique protein chains: 1
Unique nucleic acid chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
HTH-type transcriptional regulator MntR	C, D, E, F, G C, D, E, F, G, H, I, J	142	Bacillus subtilis	Mutation(s): 0 Gene Names: mntR, yqhN, BSU24520
UniProt
Find proteins for P54512 (Bacillus subtilis (strain 168)) Explore P54512 Go to UniProtKB: P54512
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P54512
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (77-MER)	A	77	Bacillus subtilis
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (77-MER)	B	77	Bacillus subtilis
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MN Query on MN Download Ideal Coordinates CCD File SDF format, chain K [auth C] SDF format, chain L [auth C] SDF format, chain M [auth D] SDF format, chain N [auth D] SDF format, chain O [auth E] SDF format, chain P [auth E] SDF format, chain Q [auth F] SDF format, chain R [auth F] SDF format, chain S [auth G] SDF format, chain T [auth G] SDF format, chain U [auth H] SDF format, chain V [auth H] SDF format, chain W [auth I] SDF format, chain X [auth I] SDF format, chain Y [auth J] SDF format, chain Z [auth J] MOL2 format, chain K [auth C] MOL2 format, chain L [auth C] MOL2 format, chain M [auth D] MOL2 format, chain N [auth D] MOL2 format, chain O [auth E] MOL2 format, chain P [auth E] MOL2 format, chain Q [auth F] MOL2 format, chain R [auth F] MOL2 format, chain S [auth G] MOL2 format, chain T [auth G] MOL2 format, chain U [auth H] MOL2 format, chain V [auth H] MOL2 format, chain W [auth I] MOL2 format, chain X [auth I] MOL2 format, chain Y [auth J] MOL2 format, chain Z [auth J]	K [auth C] L [auth C] M [auth D] N [auth D] O [auth E] K [auth C], L [auth C], M [auth D], N [auth D], O [auth E], P [auth E], Q [auth F], R [auth F], S [auth G], T [auth G], U [auth H], V [auth H], W [auth I], X [auth I], Y [auth J], Z [auth J]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain K [auth C] Focus chain L [auth C] Focus chain M [auth D] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth E] Focus chain Q [auth F] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth G] Focus chain U [auth H] Focus chain V [auth H] Focus chain W [auth I] Focus chain X [auth I] Focus chain Y [auth J] Focus chain Z [auth J] Interactions & Density Focus chain K [auth C] Focus chain L [auth C] Focus chain M [auth D] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth E] Focus chain Q [auth F] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth G] Focus chain U [auth H] Focus chain V [auth H] Focus chain W [auth I] Focus chain X [auth I] Focus chain Y [auth J] Focus chain Z [auth J]