1QD7 | pdb_00001qd7

PARTIAL MODEL FOR 30S RIBOSOMAL SUBUNIT

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1PKP	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);
experimental model	PDB	1RIS	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);
experimental model	PDB	1RSS	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);
experimental model	PDB	1AN7	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);
experimental model	PDB	1A23	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		277	VAPOUR DIFFUSION AT 277 K, MPD, VAPOR DIFFUSION

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 401.6	α = 90
b = 401.6	β = 90
c = 174.5	γ = 90

Symmetry
Space Group	P 41 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	100	CCD	BRANDEIS - B4		1999-03-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X25	1.000, 1.700	NSLS	X25

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	5.5		95		5	42000	42000

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	5.5		83		5.1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Work (Depositor)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	MAD	PROTEINS WERE FIT INTO MAP AS RIGID BODIES FROM KNOWN CRYSTAL OR NMR STRUCTURES OF ISOLATED PROTEINS EXCEPT FOR S20, FOR WHICH NO HIGH RESOLUTION STRUCTURE EXISTS. S20 WAS FIT AS THREE-HELIX BUNDLE.S4 SEE REFERENCE (1); S5 MODELED ACCORDING TO PDB CODE 1PKP;S6 MODELED ACCORDING TO PDB CODE 1RIS;S7 MODELED ACCORDING TO PDB CODE 1RSS;S8 MODELED ACCORDING TO PDB CODE 1AN7;S15 MODELED ACCORDING TO PDB CODE 1A23;S17 SEE REFERENCE (7);	5.5		42000	42000

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]

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	946
Nucleic Acid Atoms	359
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
SOLVE	phasing
O	model building
DENZO	data reduction
SCALEPACK	data scaling

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.