2NS1 | pdb_00002ns1

Crystal structure of the e. coli ammonia channel AMTB complexed with the signal transduction protein GLNK

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1U7G	PDB ENTRY 1U7G and PDB ENTRY 2GNK
experimental model	PDB	2GNK	PDB ENTRY 1U7G and PDB ENTRY 2GNK

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	293	20% PEG 550MME, 0.12M TRIS(HYDROXYMETHYL)AMINOMETHANE, 2mM ADENOSINE-5'-TRIPHOSPHATE, 25mM AMONIUM SULFATE, 0.04M B-OCTYLGLUCOSIDE, 2mM DITHIOTHREITOL, 0.05M SODIUM CHLORIDE, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
3.28	62.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 102.032	α = 90
b = 102.032	β = 90
c = 363.849	γ = 120

Symmetry
Space Group	H 3 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 QUANTUM 4	SI(111)	2006-08-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.3.1	1.1159	ALS	8.3.1

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	1.962	43.07	98.9	0.083	41.2	7.2	53722	52357		2	32.4

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	1.962	2.03	93.4		0.611	2.1	4.2	4864

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	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	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1U7G and PDB ENTRY 2GNK	1.962	43.07	1	48839	48839	2562	97.47	0.16435	0.16248	0.17	0.19838	0.21	RANDOM	30.533

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]
0.12	0.06		0.12		-0.19

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.139
r_dihedral_angle_4_deg	16.037
r_dihedral_angle_3_deg	13.042
r_scangle_it	5.74
r_dihedral_angle_1_deg	5.505
r_mcangle_it	4.879
r_mcbond_it	4.458
r_scbond_it	4.359
r_angle_other_deg	1.49
r_angle_refined_deg	1.484
r_mcbond_other	1.261
r_symmetry_vdw_other	0.236
r_chiral_restr	0.224
r_nbd_refined	0.207
r_nbtor_refined	0.185
r_nbd_other	0.184
r_xyhbond_nbd_refined	0.17
r_symmetry_hbond_refined	0.169
r_symmetry_vdw_refined	0.154
r_nbtor_other	0.086
r_xyhbond_nbd_other	0.017
r_bond_refined_d	0.012
r_gen_planes_refined	0.005
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3838
Nucleic Acid Atoms
Solvent Atoms	498
Heterogen Atoms	203

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
PHASER	phasing