2RL0

Crystal structure of the fourth and fifth fibronectin F1 modules in complex with a fragment of staphylococcus aureus fnbpa-5

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		Previous low resolution structure

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.2	291	0.2M NACL, 0.1M BIS TRIS, 14% PEG3350, pH6.2, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
2.9	57.57

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 85.58	α = 90
b = 85.58	β = 90
c = 230.86	γ = 90

Symmetry
Space Group	P 41 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	ADSC QUANTUM 4	Toroidal mirror	2006-02-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-2	0.93300	ESRF	ID14-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2	28.161	99.1	0.059	0.059	22.5	7.3	58479	58383		3.7	29.1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2	2.11	97.5		0.3	0.3	3.8	5.1	8238

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 (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Previous low resolution structure	2	28.16	58383	55429	2954	99.07	0.221	0.221	0.218	0.266	RANDOM	36.859

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]
1.78			1.78		-3.57

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.969
r_dihedral_angle_4_deg	17.853
r_dihedral_angle_3_deg	15.436
r_dihedral_angle_1_deg	6.853
r_scangle_it	4.381
r_scbond_it	2.679
r_mcangle_it	1.847
r_angle_refined_deg	1.552
r_mcbond_it	1.048
r_symmetry_vdw_refined	0.401

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.969
r_dihedral_angle_4_deg	17.853
r_dihedral_angle_3_deg	15.436
r_dihedral_angle_1_deg	6.853
r_scangle_it	4.381
r_scbond_it	2.679
r_mcangle_it	1.847
r_angle_refined_deg	1.552
r_mcbond_it	1.048
r_symmetry_vdw_refined	0.401
r_nbtor_refined	0.307
r_nbd_refined	0.276
r_symmetry_hbond_refined	0.253
r_xyhbond_nbd_refined	0.174
r_bond_refined_d	0.016
r_gen_planes_refined	0.007
r_chiral_restr	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4876
Nucleic Acid Atoms
Solvent Atoms	462
Heterogen Atoms

Software

Software
Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
MOSFLM	data reduction
MOLREP	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.