Experiment: 4AMS

A Megaviridae ORFan gene encode a new nucleotidyl transferase

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4AMQ	PDB ENTRY 4AMQ

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6		PROTEIN CONCENTRATION: 5 TO 12 MG/ML IN 10 MM CAPS BUFFER, 150 MM NACL, PH 10.5 RESERVOIR SOLUTION: 150 MM NA ACETATE PH 6

Crystal Properties
Matthews coefficient	Solvent content
4.62	73.43

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 100.632	α = 90
b = 100.632	β = 90
c = 168.822	γ = 90

Symmetry
Space Group	P 43 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	105	CCD	ADSC CCD		2011-11-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-1		ESRF	ID23-1

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	2.6	24.6	99.8	0.09	6.3	8.2		26030			65.3

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	2.6	2.74	99.8		0.48		8.2

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	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	PDB ENTRY 4AMQ	2.6	24.558	0.02	26030	1308	95.1	0.213	0.2112	0.2102	0.2468	0.2468	53.77

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]
4.4309			4.4309		-8.8619

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	16.565
f_angle_d	1.338
f_chiral_restr	0.094
f_bond_d	0.009
f_plane_restr	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3070
Nucleic Acid Atoms
Solvent Atoms	102
Heterogen Atoms	2

Software

Software
Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
CaspR	phasing