2G7U

2.3 A structure of putative catechol degradative operon regulator from Rhodococcus sp. RHA1

PDB DOI: https://doi.org/10.2210/pdb2G7U/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Rhodococcus jostii RHA1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2006-03-01 Released: 2006-04-04
Deposition Author(s): Zheng, H., Skarina, T., Chruszcz, M., Cymborowski, M., Grabowski, M., Onopriyenko, O., Savchenko, A., Edwards, A., Joachimiak, A., Minor, W., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.231 (Depositor), 0.280 (DCC)
R-Value Work:
0.180 (Depositor), 0.240 (DCC)
R-Value Observed:
0.183 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

2.3 A structure of putative catechol degradative operon regulator from Rhodococcus sp. RHA1

Zheng, H., Skarina, T., Chruszcz, M., Cymborowski, M., Grabowski, M., Onopriyenko, O., Savchenko, A., Edwards, A., Minor, W.

To be published.

Macromolecule Content

Total Structure Weight: 109.09 kDa
Atom Count: 7,878
Modelled Residue Count: 997
Deposited Residue Count: 1,028
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
transcriptional regulator	A, B, C, D	257	Rhodococcus jostii RHA1	Mutation(s): 0 Gene Names: RHA05304
UniProt
Find proteins for Q0SE57 (Rhodococcus jostii (strain RHA1)) Explore Q0SE57 Go to UniProtKB: Q0SE57
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q0SE57
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B, C, D	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.231 (Depositor), 0.280 (DCC)
R-Value Work: 0.180 (Depositor), 0.240 (DCC)
R-Value Observed: 0.183 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.407	α = 90
b = 186.52	β = 90
c = 126.36	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing
SHELXD	phasing
SHELXE	model building
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
ARP/wARP	model building
O	model building
Coot	model building
CCP4	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-04-04

Deposition Author(s):

Cymborowski, M.

Onopriyenko, O.

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2006-04-04
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.3: 2011-10-05
Changes: Structure summary
Version 1.4: 2022-04-13
Changes: Database references, Derived calculations, Structure summary
Version 1.5: 2024-11-20
Changes: Data collection, Structure summary

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.