5REQ | pdb_00005req

Methylmalonyl-COA MUTASE, Y89F Mutant, substrate complex

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5		pH 7.50

Crystal Properties
Matthews coefficient	Solvent content
2.74	48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 120.2	α = 90
b = 161.89	β = 104.88
c = 88.7	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	95	IMAGE PLATE	MARRESEARCH	MIRROR	1996-11-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 5.2R		ELETTRA	5.2R

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.16	99	98	0.05	0.05	15.1	3.3		170993		6	45

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.16	2.27	87.2		0.261	0.261	5.1	3.5

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1REQ	2.2	20	165507	7634	99.9	0.256	0.246	0.23	0.292	0.26	SAME AS 1REQ	44

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]
-0.28		1.27	0.72		2.05

RMS Deviations
Key	Refinement Restraint Deviation
p_transverse_tor	34.3
p_staggered_tor	18.5
p_planar_tor	5.3
p_scangle_it	3.4
p_mcangle_it	2.4
p_scbond_it	2.4
p_mcbond_it	1.6
p_multtor_nbd	0.164
p_xhyhbond_nbd	0.15
p_singtor_nbd	0.124
p_chiral_restr	0.116
p_xyhbond_nbd	0.11
p_planar_d	0.038
p_angle_d	0.033
p_plane_restr	0.01
p_bond_d	0.009
p_angle_deg
p_hb_or_metal_coord
p_orthonormal_tor
p_special_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	20592
Nucleic Acid Atoms
Solvent Atoms	1094
Heterogen Atoms	426

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
REFMAC	refinement
CCP4	data scaling