3KHY | pdb_00003khy

Crystal Structure of a propionate kinase from Francisella tularensis subsp. tularensis SCHU S4

PDB DOI: https://doi.org/10.2210/pdb3KHY/pdb

Classification: TRANSFERASE
Organism(s): Francisella tularensis subsp. tularensis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-10-31 Released: 2010-01-19
Deposition Author(s): Brunzelle, J.S., Skarina, T., Sharma, S., Wang, Y., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.98 Å
R-Value Free:
0.193 (Depositor), 0.199 (DCC)
R-Value Work:
0.155 (Depositor), 0.166 (DCC)
R-Value Observed:
0.155 (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 a propionate kinase from Francisella tularensis subsp. tularensis SCHU S4

Brunzelle, J.S., Sharma, S.S., Skarina, T., Wang, Y., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content

Total Structure Weight: 85.52 kDa
Atom Count: 6,625
Modeled Residue Count: 768
Deposited Residue Count: 768
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Propionate kinase	A, B	384	Francisella tularensis subsp. tularensis	Mutation(s): 0 Gene Names: FTT1753, FTT_1753, tdcD EC: 2.7.2 (PDB Primary Data), 2.7.2.1 (UniProt)
UniProt
Find proteins for Q5NE95 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NE95 Go to UniProtKB: Q5NE95
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5NE95
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.98 Å
R-Value Free: 0.193 (Depositor), 0.199 (DCC)
R-Value Work: 0.155 (Depositor), 0.166 (DCC)
R-Value Observed: 0.155 (Depositor)

Diffraction Data:

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.079	α = 90
b = 87.127	β = 90
c = 149.661	γ = 90

Software Package:

Software Name	Purpose
BLU-MAX	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2010-01-19

Deposition Author(s):

Brunzelle, J.S.

Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History (Full details and data files)

Version 1.0: 2010-01-19
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2014-10-01
Changes: Database references, Structure summary
Version 1.3: 2024-10-30
Changes: Data collection, Database references, Derived calculations, 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.