3MBP | pdb_00003mbp

MALTODEXTRIN-BINDING PROTEIN WITH BOUND MALTOTRIOSE

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2MBP	PDB ENTRY 2MBP

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6.2		PROTEIN WAS CRYSTALLIZED FROM 18% PEG 8000, 10 MM CITRATE, PH 6.2

Crystal Properties
Matthews coefficient	Solvent content
2.77	49

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 106.07	α = 90
b = 68.43	β = 112.51
c = 57.94	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	287	AREA DETECTOR	XUONG-HAMLIN MULTIWIRE	NA	1989-01-24	M

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RUH2R

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	1.7	10	86	0.065	0.0969	13.88	3.7		39297		1	19.5

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	1.7	1.82	46		0.18	0.244	2.5	2.4

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Work (Depositor)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	ISOMORPHOUS WITH 2MBP	PDB ENTRY 2MBP	1.7	10	2	29814		75	0.164		27.8

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
p_transverse_tor	27.1
p_staggered_tor	22.2
p_scangle_it	4.058
p_scbond_it	2.947
p_planar_tor	2.6
p_mcangle_it	1.814
p_multtor_nbd	0.224
p_xyhbond_nbd	0.215
p_singtor_nbd	0.197
p_chiral_restr	0.154
p_planar_d	0.065
p_angle_d	0.053
p_bond_d	0.027
p_mcbond_it	0.027
p_plane_restr	0.014
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2878
Nucleic Acid Atoms
Solvent Atoms	244
Heterogen Atoms	34

Software

Software
Software Name	Purpose
PROTEIN	model building
CHAIN	model building
PROLSQ	refinement
SDMS	data reduction
SDMS	data scaling
PROTEIN	phasing
CHAIN	phasing