2HL7

Crystal structure of the periplasmic domain of CcmH from Pseudomonas aeruginosa

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	294	20% PEG 1000, 0.1M Tris-HCl , pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
2	VAPOR DIFFUSION, HANGING DROP	8	294	38% PEG 6000, 0.8M NaCl, 0.1M Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.073	α = 90
b = 45.414	β = 90
c = 48.127	γ = 90

Symmetry
Space Group	P 21 21 21

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 210		2005-02-15	M	MAD
2	1	x-ray	100	CCD	MAR CCD 165 mm		2005-07-15	M	SINGLE WAVELENGTH
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.97920, 0.97940, 0.97560	ESRF	ID29
2	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.93100	ESRF	ID14-4

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
1,2	1.7	33	97.7			10212	10212	1	1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1,2	1.7	1.76	96.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD, MOLECULAR REPLACEMENT	THROUGHOUT	1.7	30	10116	9417	478	97.82	0.21065	0.21065	0.20941	0.23493	RANDOM	32.849

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]
-0.16			-1.21		1.37

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.002
r_dihedral_angle_4_deg	16.972
r_dihedral_angle_3_deg	15.122
r_dihedral_angle_1_deg	5.276
r_scangle_it	3.354
r_scbond_it	2.311
r_mcangle_it	1.621
r_angle_refined_deg	1.358
r_mcbond_it	1.016
r_nbtor_refined	0.312

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.002
r_dihedral_angle_4_deg	16.972
r_dihedral_angle_3_deg	15.122
r_dihedral_angle_1_deg	5.276
r_scangle_it	3.354
r_scbond_it	2.311
r_mcangle_it	1.621
r_angle_refined_deg	1.358
r_mcbond_it	1.016
r_nbtor_refined	0.312
r_symmetry_vdw_refined	0.247
r_nbd_refined	0.216
r_xyhbond_nbd_refined	0.209
r_symmetry_hbond_refined	0.104
r_chiral_restr	0.1
r_bond_refined_d	0.015
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	653
Nucleic Acid Atoms
Solvent Atoms	70
Heterogen Atoms	20

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.