1U9C | pdb_00001u9c

Crystallographic structure of APC35852

PDB DOI: https://doi.org/10.2210/pdb1U9C/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Geobacillus stearothermophilus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-08-09 Released: 2004-10-05
Deposition Author(s): Borek, D., Chen, Y., Shao, D., Collart, F., Joachimiak, A., Otwinowski, Z., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.35 Å
R-Value Free:
0.197 (Depositor), 0.196 (DCC)
R-Value Work:
0.172 (Depositor), 0.172 (DCC)
R-Value Observed:
0.173 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structural analysis of DJI superfamily

Borek, D., Chen, Y., Shao, D., Collart, F., Joachimiak, A., Otwinowski, Z.

To be published.

Macromolecule Content

Total Structure Weight: 24.74 kDa
Atom Count: 1,913
Modeled Residue Count: 221
Deposited Residue Count: 224
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
APC35852	A	224	Geobacillus stearothermophilus	Mutation(s): 0
UniProt
Find proteins for Q5KWF3 (Geobacillus kaustophilus (strain HTA426)) Explore Q5KWF3 Go to UniProtKB: Q5KWF3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5KWF3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSD Query on CSD	A	L-PEPTIDE LINKING	C₃ H₇ N O₄ S		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.35 Å
R-Value Free: 0.197 (Depositor), 0.196 (DCC)
R-Value Work: 0.172 (Depositor), 0.172 (DCC)
R-Value Observed: 0.173 (Depositor)

Diffraction Data:

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.183	α = 90
b = 66.183	β = 90
c = 53.905	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2004-10-05

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2004-10-05
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2014-11-19
Changes: Non-polymer description
Version 1.4: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.5: 2024-11-20
Changes: 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.