9HJO | pdb_00009hjo

FANCM-FAAP24-dsDNA complex

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4BXO	protein only

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	25% PEG3350 0.1M di-ammonium monohydrogen phosphate

Crystal Properties
Matthews coefficient	Solvent content
2.51	51.05

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 61.008	α = 91.629
b = 69.975	β = 89.929
c = 86.76	γ = 115.952

Symmetry
Space Group	P 1

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 315		2007-10-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	1.06	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.4	86.72	96.2	0.054	0.998	17	3.9		48487

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.4	2.44	70.19		0.928	0.344	1.1

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.401	86.718	48458	1979	96.147	0.217	0.2145	0.2146	0.2645	0.2648	Random	69.793

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]
0.968	-1.416	-0.144	-2.152	-0.639	3.634

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.529
r_dihedral_angle_6_deg	13.922
r_dihedral_angle_2_deg	12.77
r_lrange_it	9.829
r_lrange_other	9.829
r_scangle_it	7.811
r_scangle_other	7.811
r_dihedral_angle_1_deg	6.774
r_mcangle_it	5.35
r_mcangle_other	5.35
r_scbond_it	5.068
r_scbond_other	5.067
r_mcbond_it	3.345
r_mcbond_other	3.345
r_angle_refined_deg	1.726
r_dihedral_angle_other_2_deg	1.574
r_angle_other_deg	0.651
r_nbd_refined	0.185
r_nbtor_refined	0.168
r_symmetry_nbd_other	0.144
r_ncsr_local_group_3	0.128
r_symmetry_nbd_refined	0.126
r_symmetry_xyhbond_nbd_refined	0.126
r_xyhbond_nbd_refined	0.124
r_nbd_other	0.092
r_ncsr_local_group_1	0.091
r_ncsr_local_group_2	0.08
r_chiral_restr	0.078
r_symmetry_nbtor_other	0.07
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_gen_planes_other	0.003
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6415
Nucleic Acid Atoms	859
Solvent Atoms	114
Heterogen Atoms	4

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
DIALS	data scaling
PHASER	phasing