1B05 | pdb_00001b05

Structure of oligo-peptide binding protein complexed with LYS-CYS-LYS

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1OLB	PDB ENTRY 1OLB

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		5.5		CO-CRYSTALLIZED WITH URANIUM ACETATE, PH 5.5

Crystal Properties
Matthews coefficient	Solvent content
2.48	45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 109.55	α = 90
b = 76.12	β = 90
c = 70.5	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	120	IMAGE PLATE	MARRESEARCH	MIRRORS		M	SINGLE WAVELENGTH

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

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	2	15	96.2	0.087	6.6	4.3	40411	40411			17.5

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)
	2	2.12	80.3		0.188	3.4	4.2

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-Work (Depositor)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1OLB	2	15	40411	40411	1935	96.2	0.1979	0.243	19.7

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	29.1
p_staggered_tor	16.5
p_planar_tor	3.9
p_scangle_it	2.77
p_mcangle_it	2.152
p_scbond_it	1.904
p_mcbond_it	1.561
p_multtor_nbd	0.25
p_singtor_nbd	0.181
p_xyhbond_nbd	0.152
p_planar_d	0.035
p_angle_d	0.033
p_bond_d	0.013
p_angle_deg
p_hb_or_metal_coord
p_plane_restr
p_chiral_restr
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4181
Nucleic Acid Atoms
Solvent Atoms	188
Heterogen Atoms	8

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALA	data scaling
CCP4	model building
REFMAC	refinement
CCP4	data scaling
CCP4	phasing