1QJ3 | pdb_00001qj3

Crystal structure of 7,8-diaminopelargonic acid synthase in complex with 7-keto-8-aminopelargonic acid

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5	293	25% PEG-4000, 20% MPD, 100MM HEPES PH7.5, 5MM KAPA (7-KETO-8-AMINOPELARGONIC ACID), 20 DEGREES C, MICROSEEDING., pH 7.50

Crystal Properties
Matthews coefficient	Solvent content
2.06	30

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.97	α = 90
b = 55.94	β = 95.69
c = 120.84	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	100	IMAGE PLATE	MARRESEARCH		1998-10-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-D

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	2.7	20	99.9	0.104	17.6	5.8		21479		2	42.6

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	2.7	2.82	99.7		0.326	5.4

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-Work (Depositor)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	OTHER	THROUGHOUT	2.7	20	21479		99.9	0.225	0.279	RANDOM	51.8

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]

RMS Deviations
Key	Refinement Restraint Deviation
p_transverse_tor	30.4
p_staggered_tor	18.7
p_special_tor	15
p_scangle_it	8.13
p_scbond_it	6.406
p_mcangle_it	3.254
p_planar_tor	2.9
p_mcbond_it	1.977
p_multtor_nbd	0.262
p_singtor_nbd	0.188
p_xyhbond_nbd	0.18
p_chiral_restr	0.113
p_angle_d	0.033
p_planar_d	0.03
p_plane_restr	0.0174
p_bond_d	0.009
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6398
Nucleic Acid Atoms
Solvent Atoms	94
Heterogen Atoms	58

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
CCP4	phasing