3CU5 | pdb_00003cu5

Crystal structure of a two component transcriptional regulator AraC from Clostridium phytofermentans ISDg

PDB DOI: https://doi.org/10.2210/pdb3CU5/pdb

Classification: TRANSCRIPTION REGULATOR
Organism(s): Lachnoclostridium phytofermentans ISDg
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-04-15 Released: 2008-05-06
Deposition Author(s): Malashkevich, V.N., Toro, R., Wasserman, S.R., Meyer, A., 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: 2.60 Å
R-Value Free:
0.300 (Depositor), 0.301 (DCC)
R-Value Work:
0.183 (Depositor), 0.184 (DCC)
R-Value Observed:
0.189 (Depositor)

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

Literature

Crystal structure of a two component transcriptional regulator AraC from Clostridium phytofermentans ISDg.

Malashkevich, V.N., Toro, R., Wasserman, S.R., Meyer, A., Sauder, J.M., Burley, S.K., Almo, S.C.

To be published.

Macromolecule Content

Total Structure Weight: 32.32 kDa
Atom Count: 2,115
Modeled Residue Count: 253
Deposited Residue Count: 282
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Two component transcriptional regulator, AraC family	A, B	141	Lachnoclostridium phytofermentans ISDg	Mutation(s): 0 Gene Names: Cphy_0579
UniProt
Find proteins for A9KIW7 (Lachnoclostridium phytofermentans (strain ATCC 700394 / DSM 18823 / ISDg)) Explore A9KIW7 Go to UniProtKB: A9KIW7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A9KIW7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.300 (Depositor), 0.301 (DCC)
R-Value Work: 0.183 (Depositor), 0.184 (DCC)
R-Value Observed: 0.189 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.326	α = 90
b = 87.038	β = 106.22
c = 52.697	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELX	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
HKL-2000	data reduction
SHELXD	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-05-06

Deposition Author(s):

Malashkevich, V.N.

Wasserman, S.R.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2008-05-06
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, 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: 2021-02-03
Changes: Database references, Structure summary
Version 1.5: 2024-02-21
Changes: Data collection, Database references

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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.