2NLS | pdb_00002nls

Human beta-defensin-1 (Mutant Gln24Ala)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1IJV	PDB entry 1IJV

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	7.5	293	ISO-PROPANOL, SODIUM CITRATE, HEPES-NA, pH 7.5, vapor diffusion, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
1.82	32.46

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 18.81	α = 90
b = 20.32	β = 90
c = 75.12	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	MARMOSAIC 300 mm CCD		2005-04-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-BM	0.97947	APS	22-BM

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	0.98	30	95.2	0.072	27	6.1	16514	16514		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	0.98	1.02	69.5		0.209		2.7	1180

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB entry 1IJV	0.98	30	16460	16460	829	95.18	0.106	0.106	0.105	0.11	0.124	RANDOM	6.976

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]
0.17			0.1		-0.26

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.156
r_dihedral_angle_3_deg	11.908
r_dihedral_angle_4_deg	10.516
r_dihedral_angle_1_deg	6.829
r_scangle_it	3.86
r_scbond_it	3.158
r_mcangle_it	2.213
r_mcbond_it	1.899
r_angle_refined_deg	1.821
RIGID-BOND RESTRAINTS (A**2)	1.42
r_angle_other_deg	1.031
MAIN-CHAIN BOND OTHER ATOMS (A**2)	0.699
r_nbd_refined	0.22
r_symmetry_vdw_other	0.214
r_symmetry_hbond_refined	0.203
r_nbtor_refined	0.184
r_nbd_other	0.18
r_chiral_restr	0.177
r_xyhbond_nbd_refined	0.165
r_symmetry_vdw_refined	0.087
r_nbtor_other	0.08
r_bond_refined_d	0.019
r_gen_planes_refined	0.012
r_bond_other_d	0.001
r_gen_planes_other	0.001
SPHERICITY; FREE ATOMS (A**2)
SPHERICITY; BONDED ATOMS (A**2)

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	273
Nucleic Acid Atoms
Solvent Atoms	91
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
AMoRE	phasing