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
3PC7
X-ray crystal structure of the DNA ligase III-alpha BRCT domain.
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 1 (gz) (A)
Biological Assembly 2 (gz) (A)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
Method
Vapor Diffusion Hanging Drop
pH
6.5
Temperature
277.0
Details
25 % polyethylene glycol 3350, 0.1 M BisTris, 0.25 M ammonium acetate , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 70.13
α = 90
b = 70.13
β = 90
c = 62.33
γ = 90
Symmetry
Space Group
P 43 21 2
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
100
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
IMAGE PLATE
MAR scanner 345 mm plate
--
2010-08-16
Diffraction Radiation
Monochromator
Protocol
Si 111 crystal
MAD
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
APS BEAMLINE 22-ID
0.9793, 0.9748, 0.9795
APS
22-ID
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
1.65
50
98.9
0.069
--
--
9.3
19139
19139
1.0
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)
1.65
1.71
100.0
0.422
--
--
8.8
1892
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
1.65
46.589
--
0.95
35544
19117
1808
99.3
--
0.143
0.1401
0.1981
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
1.6491
1.6936
--
142
2586
0.1426
0.2081
--
100.0
X Ray Diffraction
1.6936
1.7435
--
136
2643
0.1379
0.2104
--
100.0
X Ray Diffraction
1.7435
1.7998
--
152
2584
0.1235
0.2228
--
100.0
X Ray Diffraction
1.7998
1.8641
--
143
2593
0.116
0.186
--
100.0
X Ray Diffraction
1.8641
1.9387
--
129
2640
0.1171
0.1778
--
100.0
X Ray Diffraction
1.9387
2.027
--
147
2589
0.1167
0.2059
--
100.0
X Ray Diffraction
2.027
2.1338
--
161
2612
0.1135
0.1844
--
100.0
X Ray Diffraction
2.1338
2.2675
--
159
2566
0.1179
0.204
--
100.0
X Ray Diffraction
2.2675
2.4426
--
117
2622
0.1254
0.2288
--
100.0
X Ray Diffraction
2.4426
2.6884
--
134
2619
0.1439
0.208
--
99.0
X Ray Diffraction
2.6884
3.0773
--
135
2580
0.152
0.2157
--
99.0
X Ray Diffraction
3.0773
3.8768
--
141
2556
0.1387
0.1646
--
98.0
X Ray Diffraction
3.8768
46.6072
--
112
2546
0.1543
0.2024
--
96.0
Temperature Factor Modeling
Temperature Factor
Value
Mean Isotropic B
29.361
Anisotropic B[1][1]
0.0337
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
0.0
Anisotropic B[2][2]
0.0337
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
-0.0674
RMS Deviations
Key
Refinement Restraint Deviation
f_plane_restr
0.006
f_chiral_restr
0.078
f_angle_d
1.099
f_dihedral_angle_d
12.024
f_bond_d
0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
1260
Nucleic Acid Atoms
0
Heterogen Atoms
0
Solvent Atoms
171
Software
Software
Software Name
Purpose
DENZO
data reduction
SCALEPACK
data scaling
PHENIX
refinement version: 1.6_289
PDB_EXTRACT
data extraction version: 3.10
MAR345dtb
data collection
HKL-2000
data reduction
PHASER
phasing