1VR5

Crystal structure of Oligopeptide ABC transporter, periplasmic oligopeptide-binding (TM1223) from THERMOTOGA MARITIMA at 1.73 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP	7	277	1.0M LiCl, 10.0% PEG-6000, 0.1M HEPES pH 7.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.79	55.56

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 140.03	α = 90
b = 96.64	β = 90
c = 115.78	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	100	CCD	ADSC		2005-01-22	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.1	0.97933, 1.00003,0.97951	ALS	8.2.1

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	1.73	28.61	99.9	0.087	10.3	3.8		163581			32.24

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	1.73	1.82	100		0.627	2.8	3.8	23624

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-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.73	28.61	155289	8214	99.85	0.15314	0.15164	0.18161	RANDOM	24.051

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]
1.63			0.6		-2.23

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.68
r_dihedral_angle_4_deg	16.847
r_dihedral_angle_3_deg	11.412
r_scangle_it	7.121
r_dihedral_angle_1_deg	6.082
r_scbond_it	5.03
r_mcangle_it	3.083
r_mcbond_it	1.963
r_angle_refined_deg	1.554
r_angle_other_deg	0.879
r_mcbond_other	0.601
r_metal_ion_refined	0.324
r_nbd_refined	0.222
r_symmetry_hbond_refined	0.22
r_nbtor_refined	0.193
r_xyhbond_nbd_refined	0.187
r_symmetry_vdw_other	0.185
r_nbd_other	0.181
r_symmetry_vdw_refined	0.134
r_chiral_restr	0.102
r_nbtor_other	0.087
r_bond_refined_d	0.016
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8692
Nucleic Acid Atoms
Solvent Atoms	1098
Heterogen Atoms	161

Software

Software
Software Name	Purpose
XDS	data scaling
SCALA	data scaling
SHELXD	phasing
SHARP	phasing
REFMAC	refinement
XDS	data reduction
CCP4	data scaling