4V4I

Crystal Structure of a 70S Ribosome-tRNA Complex Reveals Functional Interactions and Rearrangements.

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	ModelArchive	ma-ce688	entries 1TWT AND 1TWV that were moved from PDB to ModelArchive
in silico model	ModelArchive	ma-cbwe8	entries 1TWT AND 1TWV that were moved from PDB to ModelArchive

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	289	24-26% MPD, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Properties
Matthews coefficient	Solvent content
5	75.38

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 507.81	α = 90
b = 507.81	β = 90
c = 689.52	γ = 90

Symmetry
Space Group	I 4 2 2

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 QUANTUM 315			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 12.3.1		ALS	12.3.1

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	3.7	75	99.3	0.149		5.4		465894		1.5

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	3.7	3.8	96.6		0.467		4.1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	pdb entries 1TWT AND 1TWV	3.71	30	455685	11345	100	0.349	0.349	0.348	0.353	RANDOM

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	41.009
r_mcangle_it	35.427
r_mcbond_it	25.357
r_dihedral_angle_3_deg	17.715
r_dihedral_angle_4_deg	16.421
r_scangle_it	10.125
r_scbond_it	5.208
r_dihedral_angle_1_deg	2.795
r_angle_refined_deg	1.393
r_symmetry_vdw_refined	0.488
r_nbd_refined	0.417
r_symmetry_hbond_refined	0.366
r_xyhbond_nbd_refined	0.326
r_nbtor_refined	0.322
r_chiral_restr	0.109
r_gen_planes_refined	0.015
r_bond_refined_d	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	26862
Nucleic Acid Atoms	64786
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
CNS	refinement
d*TREK	data reduction
CCP4	data scaling
CNS	phasing