8QSO

Crystal structure of human Mcl-1 in complex with compound 1

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4WGI

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	293	1.94 M Ammonium Citrate pH 7.0

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 76.528	α = 90
b = 90.804	β = 90
c = 94.104	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	PIXEL	DECTRIS PILATUS 2M		2016-06-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE MASSIF-1	0.96600	ESRF	MASSIF-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	2.106	28.217	97.3	0.098	0.116	0.06	0.993	5.1	3		37579

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.106	2.182	99.3		0.824	0.984	0.521	0.577	1.8	3.1

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.106	28.217	37110	1888	96.04	0.21	0.208	0.2496	46.24

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]
-3.06			3.586		-0.525

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.342
r_dihedral_angle_3_deg	12.911
r_lrange_it	6.545
r_lrange_other	6.507
r_dihedral_angle_1_deg	5.811
r_dihedral_angle_2_deg	4.614
r_scangle_it	4.068
r_scangle_other	4.068
r_mcangle_it	3.332
r_mcangle_other	3.327
r_scbond_it	2.342
r_scbond_other	2.341
r_mcbond_it	2.017
r_mcbond_other	2.011
r_angle_refined_deg	0.897
r_angle_other_deg	0.314
r_symmetry_xyhbond_nbd_refined	0.209
r_nbd_refined	0.196
r_symmetry_nbd_other	0.179
r_nbtor_refined	0.176
r_xyhbond_nbd_refined	0.148
r_symmetry_nbd_refined	0.139
r_nbd_other	0.135
r_symmetry_nbtor_other	0.073
r_chiral_restr	0.045
r_symmetry_xyhbond_nbd_other	0.022
r_bond_refined_d	0.003
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4043
Nucleic Acid Atoms
Solvent Atoms	332
Heterogen Atoms	82

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data processing
XDS	data reduction
Aimless	data scaling
STARANISO	data scaling
PHASER	phasing