3GV0 | pdb_00003gv0

Crystal structure of LacI family transcription regulator from Agrobacterium tumefaciens

PDB DOI: https://doi.org/10.2210/pdb3GV0/pdb

Classification: TRANSCRIPTION REGULATOR
Organism(s): Agrobacterium fabrum str. C58
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-03-30 Released: 2009-04-14
Deposition Author(s): Bagaria, A., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free:
0.255 (Depositor), 0.272 (DCC)
R-Value Work:
0.198 (Depositor)
R-Value Observed:
0.201 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of LacI family transcription regulator from Agrobacterium tumefaciens

Bagaria, A., Burley, S.K., Swaminathan, S.

To be published.

Macromolecule Content

Total Structure Weight: 32.43 kDa
Atom Count: 2,185
Modeled Residue Count: 269
Deposited Residue Count: 288
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, LacI family	A	288	Agrobacterium fabrum str. C58	Mutation(s): 0 Gene Names: AGR_C_2807, Atu1522
UniProt
Find proteins for Q7CZ24 (Agrobacterium fabrum (strain C58 / ATCC 33970)) Explore Q7CZ24 Go to UniProtKB: Q7CZ24
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7CZ24
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free: 0.255 (Depositor), 0.272 (DCC)
R-Value Work: 0.198 (Depositor)
R-Value Observed: 0.201 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.71	α = 90
b = 86.71	β = 90
c = 111.224	γ = 120

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXD	phasing
SHARP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2009-04-14

Deposition Author(s):

Swaminathan, S.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2009-04-14
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2021-02-10
Changes: Database references, Derived calculations, Structure summary
Version 1.3: 2024-11-27
Changes: Data collection, Database references, Structure summary

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.