3Q7H | pdb_00003q7h

Structure of the ClpP subunit of the ATP-dependent Clp Protease from Coxiella burnetii

• PDB DOI: https://doi.org/10.2210/pdb3Q7H/pdb

• Classification: HYDROLASE
• Organism(s): Coxiella burnetii RSA 331
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-01-04 Released: 2011-01-12 
• Deposition Author(s): Anderson, S.M., Wawrzak, Z., Gordon, E., Hasseman, J., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.208 (Depositor) 
• R-Value Work: 
  0.170 (Depositor), 0.168 (DCC) 
• R-Value Observed: 
  0.172 (Depositor) 

Literature

Structure of the ClpP subunit of the ATP-dependent Clp Protease from Coxiella burnetii

Anderson, S.M., Wawrzak, Z., Gordon, E., Hasseman, J., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D7  (Explore in 3D)
Global Stoichiometry: Homo 14-mer - A14 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 312.01 kDa 
• Atom Count: 22,217 
• Modeled Residue Count: 2,657 
• Deposited Residue Count: 2,730 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-dependent Clp protease proteolytic subunit	A, B, C, D, E, F, G, H, I, J, K, L, M, N	195	Coxiella burnetii RSA 331	Mutation(s): 0  Gene Names: clpP, COXBURSA331_A1213 EC: 3.4.21.92
UniProt
Find proteins for Q83DJ2 (Coxiella burnetii (strain RSA 493 / Nine Mile phase I)) Explore Q83DJ2  Go to UniProtKB:  Q83DJ2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	CA [auth D], CB [auth J], DB [auth J], EB [auth J], FA [auth E], HB [auth K], IB [auth K], JA [auth F], LB [auth L], MA [auth G], MB [auth L], NA [auth G], O [auth A], P [auth A], PB [auth M], Q [auth A], QA [auth H], QB [auth M], RA [auth H], S [auth B], SA [auth H], T [auth B], TA [auth H], TB [auth N], U [auth B], UB [auth N], WA [auth I], X [auth C], XA [auth I], Y [auth C], YA [auth I], Z [auth C], ZA [auth I]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
CA	AA [auth C], AB [auth I], BA [auth C], BB [auth I], DA [auth D], EA [auth D], FB [auth J], GA [auth E], GB [auth J], HA [auth E], IA [auth E], JB [auth K], KA [auth F], KB [auth K], LA [auth F], NB [auth L], OA [auth G], OB [auth L], PA [auth G], R [auth A], RB [auth M], SB [auth M], UA [auth H], V [auth B], VA [auth H], VB [auth N], W [auth B], WB [auth N]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E, F, G, H, I, J, K, L, M, N	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.208 (Depositor) 
• R-Value Work:  0.170 (Depositor), 0.168 (DCC) 
• R-Value Observed: 0.172 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33q7h

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.912	α = 90
b = 137.469	β = 109.03
c = 127.784	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
BLU-MAX	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELXS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-12 
Deposition Author(s): Anderson, S.M., Wawrzak, Z., Gordon, E., Hasseman, J., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2011-01-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary