1EVV | pdb_00001evv

CRYSTAL STRUCTURE OF YEAST PHENYLALANINE TRANSFER RNA AT 2.0 A RESOLUTION

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1TRA	PDB ENTRY 1TRA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	DIALYSIS	7.5	277.15	CRYSTALS GROWN AT 277 K IN 0.010 M TRIS-HCL PH 7.5, 0.012 M MGCL2, 0.002 M SPERMINE, 6% 1,6-HEXANEDIOL. CRYOPROTECTION CONDITIONS: AFTER WASHING IN FRESH CRYSTALLIZATION SOLUTION FOR 10 MIN AND ADDITION OF 30% MPD (V/V), CRYSTALS WERE FLASH-FROZEN IN LIQUID NITROGEN, DIALYSIS, temperature 277.15K

Crystal Properties
Matthews coefficient	Solvent content
2.25	59.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 55.252	α = 90
b = 32.988	β = 90.38
c = 61.882	γ = 90

Symmetry
Space Group	P 1 21 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	ADSC		1999-04-20	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4		ESRF	ID14-4

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	25.8	88.6	0.036	14.8	3.1	13678	13678			29.3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.1	70.7		0.171	2.2	2.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION		THROUGHOUT	PDB ENTRY 1TRA	2	25.79	13678	13678	926	88.5	0.227	0.227	0.227	0.2	0.263	0.24	RANDOM	53.6

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]
1.86		3.76	-0.56		-1.3

RMS Deviations
Key	Refinement Restraint Deviation
c_dihedral_angle_d	12.7
c_angle_deg	1.4
c_improper_angle_d	1.3
c_bond_d	0.009
c_bond_d_na
c_bond_d_prot
c_angle_d
c_angle_d_na
c_angle_d_prot
c_angle_deg_na
c_angle_deg_prot
c_dihedral_angle_d_na
c_dihedral_angle_d_prot
c_improper_angle_d_na
c_improper_angle_d_prot
c_mcbond_it
c_mcangle_it
c_scbond_it
c_scangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms
Nucleic Acid Atoms	1652
Solvent Atoms	220
Heterogen Atoms	24

Software

Software
Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
CNS	phasing