3EGC | pdb_00003egc

Crystal structure of a putative ribose operon repressor from Burkholderia thailandensis

PDB DOI: https://doi.org/10.2210/pdb3EGC/pdb

Classification: structural genomics, unknown function
Organism(s): Burkholderia thailandensis E264
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-09-10 Released: 2008-09-30
Deposition Author(s): Bonanno, J.B., Patskovsky, Y., Gilmore, M., Bain, K.T., Hu, S., Romero, R., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free:
0.299 (Depositor), 0.300 (DCC)
R-Value Work:
0.257 (Depositor), 0.259 (DCC)
R-Value Observed:
0.259 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of a putative ribose operon repressor from Burkholderia thailandensis

Bonanno, J.B., Patskovsky, Y., Gilmore, M., Bain, K.T., Hu, S., Romero, R., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C.

To be published.

Macromolecule Content

Total Structure Weight: 191.28 kDa
Atom Count: 12,302
Modeled Residue Count: 1,568
Deposited Residue Count: 1,746
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative ribose operon repressor	A, B, C, D, E A, B, C, D, E, F	291	Burkholderia thailandensis E264	Mutation(s): 0 Gene Names: BTH_I0812
UniProt
Find proteins for Q2T0D1 (Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CCUG 48851 / CIP 106301 / E264)) Explore Q2T0D1 Go to UniProtKB: Q2T0D1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q2T0D1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free: 0.299 (Depositor), 0.300 (DCC)
R-Value Work: 0.257 (Depositor), 0.259 (DCC)
R-Value Observed: 0.259 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.712	α = 90
b = 288.651	β = 113.59
c = 63.355	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
DENZO	data reduction
SHELXCD	phasing
SHELXE	model building

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-09-30

Deposition Author(s):

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2008-09-30
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2017-10-25
Changes: Refinement description
Version 1.3: 2018-11-14
Changes: Data collection, Structure summary
Version 1.4: 2021-02-10
Changes: Database references, Structure summary
Version 1.5: 2024-02-21
Changes: Data collection, Database references