8HE6 | pdb_00008he6

Crystal structure of a fosfomycin and bleomycin resistant protein (ALL3014) from Anabaena/Nostoc cyanobacterium at 1.70 A resolution

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6A4X

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.5	298	0.2M lithium sulphate, 0.1M sodium acetate, 50 % PEG 400

Crystal Properties
Matthews coefficient	Solvent content
2.55	51.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 109.462	α = 90
b = 109.462	β = 90
c = 46.668	γ = 90

Symmetry
Space Group	P 4 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	MARRESEARCH	mirror	2016-12-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALBA BEAMLINE XALOC	1.0718	ALBA	XALOC

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym I (Observed)	CC (Half)	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	1.7	77.41	95	0.068	0.072	0.99	17.4	9.1		31802

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.7	1.79	85		0.8	0.62	1.8	6

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-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6A4X	1.7	48.953	30145	1466	94.793	0.174	0.1715	0.18	0.2173	0.23	27.792

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]
-0.005			-0.005		0.01

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.438
r_dihedral_angle_4_deg	19.015
r_dihedral_angle_3_deg	14.298
r_lrange_it	9.294
r_lrange_other	9.247
r_dihedral_angle_1_deg	6.486
r_scangle_it	6.073
r_scangle_other	6.069
r_mcangle_other	4.855
r_mcangle_it	4.851
r_scbond_it	3.937
r_scbond_other	3.928
r_mcbond_it	3.156
r_mcbond_other	3.143
r_angle_refined_deg	1.568
r_angle_other_deg	1.504
r_symmetry_xyhbond_nbd_refined	0.234
r_nbd_refined	0.21
r_nbd_other	0.205
r_xyhbond_nbd_refined	0.202
r_symmetry_nbd_other	0.188
r_nbtor_refined	0.171
r_symmetry_nbd_refined	0.156
r_symmetry_xyhbond_nbd_other	0.092
r_ncsr_local_group_1	0.088
r_chiral_restr	0.087
r_symmetry_nbtor_other	0.084
r_bond_refined_d	0.01
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1934
Nucleic Acid Atoms
Solvent Atoms	250
Heterogen Atoms	2

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
Auto-Rickshaw	phasing