2II6

Crystal structure of Pasteurella multocida sialyltransferase D141N mutant in open conformation with CMP bound

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2EX0	PDB ENTRY 2EX0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5		25% PEG3350, 0.1 M NaCl, 0.1 M HEPES, 0.4% Triton X-100, pH 7.5

Crystal Properties
Matthews coefficient	Solvent content
1.93	36.18

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 52.625	α = 90
b = 62.049	β = 113.7
c = 61.529	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	98	CCD	ADSC QUANTUM 315	DOUBLE CRYSTAL MONOCHROMATOR	2006-01-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL1-5	0.97946	SSRL	BL1-5

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.75	31.02	97.3	0.107	9	1.9	36710	35649			15.472

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.75	1.8	96.2		0.191	3.9	2	2678

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	PDB ENTRY 2EX0	1.75	31.02	34868	33850	1781	97.08	0.20278	0.20046	0.24669	RANDOM	19.673

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]
-0.36		0.7	-0.26		1.18

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.694
r_dihedral_angle_4_deg	21.156
r_dihedral_angle_3_deg	14.016
r_dihedral_angle_1_deg	5.632
r_scangle_it	2.707
r_scbond_it	1.8
r_angle_refined_deg	1.347
r_mcangle_it	1.061
r_mcbond_it	0.733
r_nbtor_refined	0.308
r_nbd_refined	0.207
r_symmetry_vdw_refined	0.183
r_xyhbond_nbd_refined	0.172
r_symmetry_hbond_refined	0.162
r_chiral_restr	0.099
r_bond_refined_d	0.012
r_gen_planes_refined	0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3192
Nucleic Acid Atoms
Solvent Atoms	484
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing