1ZTC | pdb_00001ztc

Crystal structure of a putative metallo-beta-lactamase (tm0894) from Thermotoga maritima at 2.10 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP, NANODROP	6.3	277	35.0% MPD, 0.1M Na,K-Phosphate, pH 6.3, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
4.23	70.67

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 89.783	α = 90
b = 127.343	β = 90
c = 152.224	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	ADSC QUANTUM 315	Flat mirror (vertical focusing), single crystal Si(111) bent monochromator (horizontal focusing)	2005-04-03	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL11-1	0.946415, 0.979413	SSRL	BL11-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.1	29.93	98	0.048	0.048	10.6	3.4		100112

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.1	2.21		88.6	0.413	0.413	1.9	2.7

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 (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	2.1	29.6	95035	5004	97.81	0.159	0.15855	0.157	0.17	0.178	0.19	RANDOM	44.232

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]
0.67			-1.91		1.24

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.324
r_dihedral_angle_4_deg	19.305
r_dihedral_angle_3_deg	14.598
r_dihedral_angle_1_deg	6.581
r_scangle_it	6.363
r_scbond_it	4.691
r_mcangle_it	2.586
r_mcbond_it	1.931
r_angle_refined_deg	1.366
r_angle_other_deg	0.812
r_mcbond_other	0.425
r_symmetry_vdw_other	0.318
r_nbd_refined	0.197
r_nbd_other	0.182
r_symmetry_vdw_refined	0.18
r_nbtor_refined	0.179
r_xyhbond_nbd_refined	0.136
r_symmetry_hbond_refined	0.114
r_nbtor_other	0.084
r_chiral_restr	0.082
r_bond_refined_d	0.015
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6769
Nucleic Acid Atoms
Solvent Atoms	454
Heterogen Atoms	73

Software

Software
Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
MOSFLM	data reduction
CCP4	data scaling
SOLVE	phasing