Experiment: 4CS5

Crystal Structure of PCNA from Litopenaeus vannamei

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1VYM	HOMOLOGY MODEL OF LVPCNA BASED ON PDB ENTRY 1VYM

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5		300 MM CACL2, 100 MM SODIUM HEPES PH 7.5 AND 30%(V/V) PEG 400

Crystal Properties
Matthews coefficient	Solvent content
2.36	47.35

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 144.57	α = 90
b = 83.38	β = 117.65
c = 74.31	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARRESEARCH MAR165	MIRRORS	2012-03-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X4C		NSLS	X4C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	3	40	93.3	0.09	10.69	2.96		14802		2	55.53

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3	3.1	97		0.42	3.57	3.1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	HOMOLOGY MODEL OF LVPCNA BASED ON PDB ENTRY 1VYM	3	28.058	14782	736	93.71	0.2672	0.2648	0.2493	0.3108	0.2981

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-22.7877		-8.267	-24.6962		44.0041

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	18.146
f_angle_d	1.489
f_chiral_restr	0.116
f_bond_d	0.01
f_plane_restr	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5877
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing