7NWN | pdb_00007nwn

A carbohydrate binding module family 9 (CBM9) from Caldicellulsiruptor kristjanssonii

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1I8U

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.1 M phosphate-citrate and 40% polyethylene glycol 300

Crystal Properties
Matthews coefficient	Solvent content
4.35	71.74

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 172.671	α = 90
b = 172.671	β = 90
c = 172.671	γ = 90

Symmetry
Space Group	I 4 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	PIXEL	DECTRIS EIGER X 16M		2019-04-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	1.00003	MAX IV	BioMAX

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	1.97	46.191	100	1	26.81	79.9		31213

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.97	2.11			0.76

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1I8U	1.97	46.191	31206	1519	99.962	0.183	0.1804	0.18	0.2301	0.23	46.697

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
r_dihedral_angle_2_deg	37.336
r_dihedral_angle_4_deg	16.689
r_dihedral_angle_3_deg	15.002
r_lrange_it	10.38
r_dihedral_angle_1_deg	7.831
r_scangle_it	7.418
r_mcangle_it	6.282
r_scbond_it	5.84
r_mcbond_it	4.483
r_angle_refined_deg	1.811
r_nbtor_refined	0.314
r_nbd_refined	0.22
r_symmetry_nbd_refined	0.214
r_xyhbond_nbd_refined	0.15
r_symmetry_xyhbond_nbd_refined	0.145
r_metal_ion_refined	0.136
r_chiral_restr	0.123
r_bond_refined_d	0.013
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1575
Nucleic Acid Atoms
Solvent Atoms	140
Heterogen Atoms	97

Software

Software
Software Name	Purpose
REFMAC	refinement
PHENIX	phasing