3QZX

3D Structure of ferric methanosarcina acetivorans protoglobin Y61A mutant with unknown ligand

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		277	0.4 monobasic ammonium phosphate, VAPOR DIFFUSION, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.21	44.44

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 80.089	α = 90
b = 49.239	β = 92.57
c = 51.514	γ = 90

Symmetry
Space Group	C 1 2 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 QUANTUM 315r		2007-09-28	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)	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	1.3	51.43	99.6				49084

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	1.3	1.37	99.8		0.255	3.6	2.9

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1.3	41.93	46601	2482	99.47	0.13364	0.13203	0.16399	RANDOM	15.739

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]
0.11		-0.02	-0.12

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.959
r_dihedral_angle_4_deg	20.495
r_sphericity_free	15.491
r_dihedral_angle_3_deg	14.548
r_sphericity_bonded	9.032
r_scangle_it	6.533
r_dihedral_angle_1_deg	5.577
r_scbond_it	4.945
r_mcangle_it	3.606
r_rigid_bond_restr	3.152

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.959
r_dihedral_angle_4_deg	20.495
r_sphericity_free	15.491
r_dihedral_angle_3_deg	14.548
r_sphericity_bonded	9.032
r_scangle_it	6.533
r_dihedral_angle_1_deg	5.577
r_scbond_it	4.945
r_mcangle_it	3.606
r_rigid_bond_restr	3.152
r_mcbond_it	2.563
r_angle_refined_deg	1.339
r_chiral_restr	0.331
r_bond_refined_d	0.012
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1584
Nucleic Acid Atoms
Solvent Atoms	255
Heterogen Atoms	59

Software

Software
Software Name	Purpose
ADSC	data collection
PHASER	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	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 R01GM133198.