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139555
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
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Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
1DFX
DESULFOFERRODOXIN FROM DESULFOVIBRIO DESULFURICANS, ATCC 27774
Display Files
FASTA Sequence
PDB File
PDB File (Header)
mmCIF File
mmCIF File (Header)
PDBML/XML File
PDBML/XML File (Header)
Download Files
FASTA Sequence
PDB File (Text)
PDB File (gz)
PDBx/mmCIF File
PDBx/mmCIF File (gz)
PDBML/XML File
PDBML/XML File (gz)
Structure Factor (Text)
Structure Factor (gz)
Biological Assembly (gz) (A+S)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
pH
7.5
Details
PROTEIN WAS CRYSTALLIZED FROM 20% PEG 4000, 0.1 M HEPES, CACL2 0.2 M, PH 7.5
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 112.5
α = 90
b = 112.5
β = 90
c = 63.2
γ = 120
Symmetry
Space Group
H 3 2
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
293
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
IMAGE PLATE
MARRESEARCH
MIRRORS
1992-10
Diffraction Radiation
Monochromator
Protocol
SI(111)
--
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
SRS BEAMLINE PX9.5
--
SRS
PX9.5
Data Collection
Overall
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
1.9
20
97.7
0.045
0.045
--
2.2
--
11867
--
2.0
--
High Resolution Shell
Resolution (High)
Resolution (Low)
Percent Possible (All)
R Merge I (Observed)
R-Sym I (Observed)
Mean I Over Sigma (Observed)
Redundancy
Number Unique Reflections (All)
1.9
1.97
96.3
0.26
0.26
2.9
2.2
--
Refinement
Statistics
Structure Solution Method
Refinement High Resolution
Refinement Low Resolution
Cut-off Sigma (I)
Cut-off Sigma (F)
Number of Reflections (All)
Number of Reflections (Observed)
Number of Reflections (R-Free)
Percent Reflections (Observed)
R-Factor (All)
R-Factor (Observed)
R-Work
R-Free
R-Free Selection Details
MULTIPLE WAVELENGTH ANOMALOUS DISPERSION (MAD)
1.9
20.0
--
0.0
13564
--
689
97.7
0.2
0.2
--
0.23
RANDOM
RMS Deviations
Key
Refinement Restraint Deviation
s_non_zero_chiral_vol
0.141
s_bond_d
0.02
s_anti_bump_dis_restr
0.013
s_similar_dist
0.0
s_from_restr_planes
0.274
s_zero_chiral_vol
0.083
s_angle_d
0.035
Coordinate Error
Parameter
Value
Occupancy Sum Non Hydrogen
1027.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
974
Nucleic Acid Atoms
0
Heterogen Atoms
3
Solvent Atoms
71
Software
Software
Software Name
Purpose
SHELXL-93
model building
SHELXL-93
refinement
DENZO
data reduction
SCALEPACK
data scaling
SHELXL-93
phasing