1WCU | pdb_00001wcu

CBM29_1, A Family 29 Carbohydrate Binding Module from Piromyces equi

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1				0.6M LITHIUM ACETATE, 20% PEG 3350. WITH PROTEIN AT A FINAL CONCENTRATION OF 10 MG / ML FINAL.

Crystal Properties
Matthews coefficient	Solvent content
1.9	33.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 30.054	α = 90
b = 57.512	β = 90
c = 76.13	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 CCD	A ZEISS MIRROR WITH DIMENSIONS OF 800X95X78 MM3. MADE OF MONOCRYSTALLINE SILICON AND COATED WITH 20-50 NM RH. SPECIFICATIONS SAGITTAL RADIUS 77.15, BENDING RADIUS 9KM	2002-12-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4		ESRF	ID14-4

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	1.5	46.12	100	0.04	40	5		21737		2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.5	1.53	99		0.1	13	3.2

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1GWK	1.5	46.13	20621	1114	99.6	0.141	0.14	0.15	0.164	RANDOM	10.64

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]
			-0.11		0.11

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.165
r_dihedral_angle_3_deg	13.58
r_dihedral_angle_4_deg	10.77
r_dihedral_angle_1_deg	7.295
r_scangle_it	3.226
r_angle_other_deg	2.688
r_scbond_it	2.351
r_angle_refined_deg	1.41
r_mcangle_it	1.266
r_mcbond_it	1.051
r_symmetry_vdw_other	0.27
r_nbd_refined	0.237
r_nbtor_refined	0.22
r_symmetry_hbond_refined	0.217
r_nbd_other	0.178
r_xyhbond_nbd_refined	0.177
r_symmetry_vdw_refined	0.177
r_chiral_restr	0.087
r_nbtor_other	0.082
r_bond_refined_d	0.01
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1193
Nucleic Acid Atoms
Solvent Atoms	250
Heterogen Atoms	6

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing