Warning
You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.
MyPDB
Toggle navigation
RCSB PDB
Deposit
Prepare Data
pdb_extract
SF-Tool
Ligand Expo
MAXIT
Validate Data
Validation Server
Information for Journals
Validation Task Forces
Deposit Data
wwPDB OneDep System
Deposition Help & Resources
Deposit FAQ
Tutorials
Annotation Policies
Processing Procedures
PDBx/mmCIF Dictionary
Chemical Component Dictionary
PDB Format Guide
BioSync Beamlines/Facilities
Related Tools
Search
Advanced Search
Drilldown Search
Unreleased & New Entries
Sequences
Ligands
Drugs & Drug Targets
Browse by Annotation
PDB Statistics
Visualize
Visualize3DViewer
PoseView
Protein Feature View
Human Gene View
Pathway View
Analyze
Sequence & Structure Alignment
Protein Symmetry
Structure Quality
Map Genomic Position to Protein
PDB Statistics
Third Party Tools
Download
Coordinates & Experimental Data
Sequences
Ligands
FTP Archive & Services
HTTPS Services
Other Services
RESTful Web Services
Learn
About
Molecule of the Month
Browse all Resources
Educational Resources
Curricula
Guide to PDB Data
News and Events
More
Contact Us
Citing Us
Usage & Privacy
Help Topics
About RCSB PDB
Team Members
Advisory Committee
News
Publications
Careers
139555
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
Go
Advanced
Search
|
Browse
by Annotations
|
Search
History
|
Previous
Results
Navigation Tabs
Structure Summary
3D View
Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
1GKR
L-Hydantoinase (Dihydropyrimidinase) from Arthrobacter aurescens
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
8.5
Details
16-18% (W/V) PEG 8000, 250 MM LITHIUM SULPHATE, 100 MM MES/TRIS PH 8.5
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 111.5
α = 90
b = 74.3
β = 106.57
c = 146.9
γ = 90
Symmetry
Space Group
P 1 21 1
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
283
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
AREA DETECTOR
SIEMENS
--
1996-03-20
Diffraction Radiation
Monochromator
Protocol
GRAPHITE CRYSTAL
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
ROTATING ANODE
RIGAKU
--
--
--
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
2.6
20
86.6
0.091
--
--
2.0
--
61763
--
--
--
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)
2.6
2.74
41.2
0.148
--
2.5
1.3
--
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
MOLECULAR REPLACEMENT
2.6
30.0
--
0.0
--
61515
3106
86.3
--
0.224
0.224
0.244
RANDOM
High Resolution Shell
Refinement method
Shell Resolution (High)
Shell Resolution (Low)
# of Reflections (Observed)
# of Reflections (R-Free)
# of Reflections (R-Work)
R-Factor (R-Work)
R-Factor (R-Free)
R-Factor (R-Free Error)
Percent Reflections (Observed)
X Ray Diffraction
2.6
2.69
--
94
1823
0.334
0.333
0.034
27.1
Temperature Factor Modeling
Temperature Factor
Value
Mean Isotropic B
23.6
Anisotropic B[1][1]
11.032
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
-0.884
Anisotropic B[2][2]
-12.42
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
1.388
RMS Deviations
Key
Refinement Restraint Deviation
c_improper_angle_d
1.1
c_bond_d
0.009
c_dihedral_angle_d
24.8
c_angle_deg
1.66
Coordinate Error
Parameter
Value
Luzzati ESD (Observed)
0.36
Luzzati Sigma A (Observed)
0.5
Luzzati Resolution Cutoff (Low)
5.0
Luzzati ESD (R-Free Set)
0.4
Luzzati Sigma A (R-Free Set)
0.53
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
13680
Nucleic Acid Atoms
0
Heterogen Atoms
8
Solvent Atoms
508
Software
Software
Software Name
Purpose
CNS
refinement version: 1.0
XENGEN
data reduction
CNS
phasing