1XFJ | pdb_00001xfj

Crystal structure of protein CC_0490 from Caulobacter crescentus, Pfam DUF152

• PDB DOI: https://doi.org/10.2210/pdb1XFJ/pdb

• Classification: structural genomics, unknown function
• Organism(s): Caulobacter vibrioides
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-09-14 Released: 2004-09-21 
• Deposition Author(s): Krishnamurthy, N.R., Kumaran, D., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.220 (Depositor) 
• R-Value Work: 
  0.180 (Depositor) 

Literature

Crystal structure of a conserved hypothetical protein from Caulobacter crescentus

Krishnamurthy, N.R., Kumaran, D., Swaminathan, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 28.38 kDa 
• Atom Count: 2,202 
• Modeled Residue Count: 256 
• Deposited Residue Count: 261 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
conserved hypothetical protein	A	261	Caulobacter vibrioides	Mutation(s): 3
UniProt
Find proteins for Q9AAV3 (Caulobacter vibrioides (strain ATCC 19089 / CIP 103742 / CB 15)) Explore Q9AAV3  Go to UniProtKB:  Q9AAV3

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
BME	C [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
ACT	B [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.220 (Depositor) 
• R-Value Work:  0.180 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.807	α = 90
b = 66.828	β = 110.6
c = 43.17	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
HKL-2000	data reduction
SOLVE	phasing
SHARP	phasing
ARP/wARP	model building
CNS	refinement
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-09-21 
Deposition Author(s): Krishnamurthy, N.R., Kumaran, D., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2004-09-21
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2025-03-26
  Changes: Data collection, Database references, Structure summary