2ZT2 | pdb_00002zt2

Carbonmonoxy Sperm Whale Myoglobin at 120 K: Laser on [600 min]

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	batch	6	293	2.4M Ammonium sulfate, 10mM TrisHCl, 100mM Sodium phosphate, pH 6.0, batch, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
1.89	34.92

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 34.453	α = 90
b = 30.718	β = 105.59
c = 63.907	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	120	CCD	MAR CCD 165 mm		2007-05-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PHOTON FACTORY BEAMLINE AR-NW14A	0.827	Photon Factory	AR-NW14A

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	1.21	50	97.2	0.053	11.1	3.6		38508		-3

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)
	1.21	1.25	75.4		0.392		2.4	2948

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	PDB ENTRY 1MBC	1.21	20.01	38494	1940	97.69	0.146	0.144	0.14	0.186	0.18	RANDOM	15.013

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]
0.02			0.01		-0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.379
r_dihedral_angle_4_deg	18.923
r_dihedral_angle_3_deg	14.248
r_sphericity_free	10.422
r_scangle_it	6.311
r_sphericity_bonded	5.834
r_dihedral_angle_1_deg	4.847
r_scbond_it	4.83
r_rigid_bond_restr	3.438
r_mcangle_it	3.211
r_mcbond_it	2.219
r_angle_refined_deg	1.908
r_metal_ion_refined	0.519
r_nbtor_refined	0.319
r_nbd_refined	0.303
r_symmetry_vdw_refined	0.166
r_chiral_restr	0.145
r_xyhbond_nbd_refined	0.116
r_symmetry_hbond_refined	0.105
r_bond_refined_d	0.02
r_gen_planes_refined	0.013

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1217
Nucleic Acid Atoms
Solvent Atoms	161
Heterogen Atoms	55

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling