1IOV | pdb_00001iov

COMPLEX OF D-ALA:D-ALA LIGASE WITH ADP AND A PHOSPHORYL PHOSPHONATE

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2DLN

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6.5		AMMONIUM SULFATE, pH 6.5

Crystal Properties
Matthews coefficient	Solvent content
2	37.17

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 98.6	α = 90
b = 51	β = 90
c = 51.2	γ = 90

Symmetry
Space Group	P 21 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	295	AREA DETECTOR	SIEMENS		1995-11-07	M

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RUH2R

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	2.2		75	0.067	8.8			11579

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2.1	2.4	39

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Work (Depositor)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	2DLN	2.2	15	3	7591		75	0.156	0.204	10.3

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_staggered_tor	22.5
p_transverse_tor	19.6
p_angle_d	1.1
p_planar_tor	1.1
p_mcangle_it	0.472
p_xyhbond_nbd	0.365
p_scangle_it	0.356
p_multtor_nbd	0.305
p_mcbond_it	0.263
p_singtor_nbd	0.204
p_scbond_it	0.197
p_chiral_restr	0.115
p_planar_d	0.019
p_bond_d	0.008
p_plane_restr	0.005
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2293
Nucleic Acid Atoms	27
Solvent Atoms	263
Heterogen Atoms	17

Software

Software
Software Name	Purpose
PROLSQ	refinement
XENGEN	data reduction
XENGEN	data scaling