2PCS | pdb_00002pcs

Crystal structure of conserved protein from Geobacillus kaustophilus

PDB DOI: https://doi.org/10.2210/pdb2PCS/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Geobacillus kaustophilus HTA426
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2007-03-30 Released: 2007-04-10
Deposition Author(s): Bonanno, J.B., Gilmore, J., Bain, K.T., Wu, B., Romero, R., Smith, D., 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: 2.40 Å
R-Value Free:
0.287 (Depositor), 0.298 (DCC)
R-Value Work:
0.239 (Depositor), 0.257 (DCC)
R-Value Observed:
0.242 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.7 of the entry. See complete history.

Literature

Crystal structure of conserved protein from Geobacillus kaustophilus

Bonanno, J.B., Gilmore, J., Bain, K.T., Wu, B., Romero, R., Smith, D., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C.

To be published.

Macromolecule Content

Total Structure Weight: 17.63 kDa
Atom Count: 1,202
Modeled Residue Count: 152
Deposited Residue Count: 162
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Conserved protein	A	162	Geobacillus kaustophilus HTA426	Mutation(s): 0 Gene Names: GKP20
UniProt
Find proteins for Q5QL47 (Geobacillus kaustophilus (strain HTA426)) Explore Q5QL47 Go to UniProtKB: Q5QL47
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5QL47
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
UNL Query on UNL Download:Ideal Coordinates CCD File	B [auth A]	Unknown ligand		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.287 (Depositor), 0.298 (DCC)
R-Value Work: 0.239 (Depositor), 0.257 (DCC)
R-Value Observed: 0.242 (Depositor)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.977	α = 90
b = 61.977	β = 90
c = 106.378	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
MOSFLM	data reduction
CCP4	data scaling
SHELXD	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-04-10

Deposition Author(s):

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2007-04-10
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: 2012-10-24
Changes: Structure summary
Version 1.4: 2017-10-18
Changes: Refinement description
Version 1.5: 2018-11-14
Changes: Data collection, Structure summary
Version 1.6: 2021-02-03
Changes: Database references, Derived calculations, Structure summary
Version 1.7: 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.