7L6L

Crystal Structure of the DNA-binding Transcriptional Repressor DeoR from Escherichia coli str. K-12

PDB DOI: https://doi.org/10.2210/pdb7L6L/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-12-23 Released: 2021-12-01
Deposition Author(s): Minasov, G., Shuvalova, L., Kiryukhina, O., Dubrovska, I., Wiersum, G., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.183
R-Value Work: 0.158
R-Value Observed: 0.159

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal Structure of the DNA-binding Transcriptional Repressor DeoR from Escherichia coli str. K-12.

Minasov, G., Shuvalova, L., Kiryukhina, O., Dubrovska, I., Wiersum, G., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content

Total Structure Weight: 129.77 kDa
Atom Count: 10,195
Modelled Residue Count: 1,078
Deposited Residue Count: 1,116
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Deoxyribose operon repressor	A, B, C, D, E A, B, C, D, E, F	186	Escherichia coli K-12	Mutation(s): 0 Gene Names: deoR, nucR, b0840, JW0824
UniProt
Find proteins for P0ACK5 (Escherichia coli (strain K12)) Explore P0ACK5 Go to UniProtKB: P0ACK5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0ACK5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain AA [auth D] SDF format, chain CA [auth E] SDF format, chain DA [auth E] SDF format, chain FA [auth F] SDF format, chain GA [auth F] SDF format, chain H [auth A] SDF format, chain HA [auth F] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain M [auth B] SDF format, chain N [auth B] SDF format, chain O [auth B] SDF format, chain P [auth B] SDF format, chain Q [auth B] SDF format, chain T [auth C] SDF format, chain U [auth C] SDF format, chain V [auth C] SDF format, chain X [auth D] SDF format, chain Y [auth D] SDF format, chain Z [auth D] MOL2 format, chain AA [auth D] MOL2 format, chain CA [auth E] MOL2 format, chain DA [auth E] MOL2 format, chain FA [auth F] MOL2 format, chain GA [auth F] MOL2 format, chain H [auth A] MOL2 format, chain HA [auth F] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain M [auth B] MOL2 format, chain N [auth B] MOL2 format, chain O [auth B] MOL2 format, chain P [auth B] MOL2 format, chain Q [auth B] MOL2 format, chain T [auth C] MOL2 format, chain U [auth C] MOL2 format, chain V [auth C] MOL2 format, chain X [auth D] MOL2 format, chain Y [auth D] MOL2 format, chain Z [auth D] mmCIF format, chain AA [auth D] mmCIF format, chain CA [auth E] mmCIF format, chain DA [auth E] mmCIF format, chain FA [auth F] mmCIF format, chain GA [auth F] mmCIF format, chain H [auth A] mmCIF format, chain HA [auth F] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain M [auth B] mmCIF format, chain N [auth B] mmCIF format, chain O [auth B] mmCIF format, chain P [auth B] mmCIF format, chain Q [auth B] mmCIF format, chain T [auth C] mmCIF format, chain U [auth C] mmCIF format, chain V [auth C] mmCIF format, chain X [auth D] mmCIF format, chain Y [auth D] mmCIF format, chain Z [auth D]	AA [auth D] CA [auth E] DA [auth E] FA [auth F] GA [auth F] AA [auth D], CA [auth E], DA [auth E], FA [auth F], GA [auth F], H [auth A], HA [auth F], I [auth A], J [auth A], M [auth B], N [auth B], O [auth B], P [auth B], Q [auth B], T [auth C], U [auth C], V [auth C], X [auth D], Y [auth D], Z [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain AA [auth D] Focus chain CA [auth E] Focus chain DA [auth E] Focus chain FA [auth F] Focus chain GA [auth F] Focus chain H [auth A] Focus chain HA [auth F] Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain N [auth B] Focus chain O [auth B] Focus chain P [auth B] Focus chain Q [auth B] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D] Interactions & Density Focus chain AA [auth D] Focus chain CA [auth E] Focus chain DA [auth E] Focus chain FA [auth F] Focus chain GA [auth F] Focus chain H [auth A] Focus chain HA [auth F] Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain N [auth B] Focus chain O [auth B] Focus chain P [auth B] Focus chain Q [auth B] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain EA [auth F] SDF format, chain G [auth A] SDF format, chain L [auth B] SDF format, chain S [auth C] MOL2 format, chain EA [auth F] MOL2 format, chain G [auth A] MOL2 format, chain L [auth B] MOL2 format, chain S [auth C] mmCIF format, chain EA [auth F] mmCIF format, chain G [auth A] mmCIF format, chain L [auth B] mmCIF format, chain S [auth C]	EA [auth F], G [auth A], L [auth B], S [auth C]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain EA [auth F] Focus chain G [auth A] Focus chain L [auth B] Focus chain S [auth C] Interactions & Density Focus chain EA [auth F] Focus chain G [auth A] Focus chain L [auth B] Focus chain S [auth C]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain BA [auth E] SDF format, chain K [auth B] SDF format, chain R [auth C] SDF format, chain W [auth D] MOL2 format, chain BA [auth E] MOL2 format, chain K [auth B] MOL2 format, chain R [auth C] MOL2 format, chain W [auth D] mmCIF format, chain BA [auth E] mmCIF format, chain K [auth B] mmCIF format, chain R [auth C] mmCIF format, chain W [auth D]	BA [auth E], K [auth B], R [auth C], W [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain BA [auth E] Focus chain K [auth B] Focus chain R [auth C] Focus chain W [auth D] Interactions & Density Focus chain BA [auth E] Focus chain K [auth B] Focus chain R [auth C] Focus chain W [auth D]