3D9S | pdb_00003d9s

Human Aquaporin 5 (AQP5) - High Resolution X-ray Structure

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1J4N	PDB ENTRY 1J4N

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.6	281	19% polyethylene glycol 400, 0.1M Tris HCl pH 7.6, 0.1M NaCl, 6% v/v 1,6-hexanediol, 3% v/v 1,4-butanediol or 3% v/v 1,3-propanediol, VAPOR DIFFUSION, HANGING DROP, temperature 281K

Crystal Properties
Matthews coefficient	Solvent content
3.15	61

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 90.477	α = 90
b = 90.644	β = 90
c = 184.395	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	170	CCD	ADSC QUANTUM 4		2007-07-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-3	0.931	ESRF	ID14-3

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	52.56	82.9	0.061	8.3	3.7	84751	84751		3	26.15

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)
	2	2.11	82.6		0.494	1.5	3.7	12232

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-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	AB INITIO	FREE R	PDB ENTRY 1J4N	2	10	4	84751	79673	4174	78	0.162	0.1599	0.193	0.1868	THIN RESOLUTION SHELLS (RANDOMLY) TO ACCOUNT FOR TWINNING; TWIN RELATED REFLECTIONS ALWAYS IN THE SAME SET (WORK OR TEST SET) NOT DIVIDED BETWEEN THEM.	37.2

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]

Coordinate Error
Structure Solution Method	Refinement High Resolution	Refinement Low Resolution
		7386.58

RMS Deviations
Key	Refinement Restraint Deviation
s_similar_adp_cmpnt	0.103
s_non_zero_chiral_vol	0.035
s_zero_chiral_vol	0.033
s_from_restr_planes	0.0241
s_angle_d	0.024
s_anti_bump_dis_restr	0.013
s_bond_d	0.006
s_similar_dist
s_rigid_bond_adp_cmpnt
s_approx_iso_adps

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7241
Nucleic Acid Atoms
Solvent Atoms	111
Heterogen Atoms	38

Software

Software
Software Name	Purpose
SHELX	model building
SHELXL-97	refinement
MxCuBE	data collection
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing