X-Ray Diffraction data from human PcdhgB3 EC1-4, source of 5K8R structure

Data DOI: 10.15785/SBGRID/325 | ID: 325

Publication DOI: 10.7554/eLife.18449

5K8R Coordinates: Viewer, PDB (RCSB) (PDBe), MMDB

Gaudet Laboratory, Harvard University

Release Date: July 29, 2016

Data Access Instructions

1. If this dataset is locally available, it should be accessable at /programs/datagrid/325

2. To download this dataset, please run the following command from your Terminal on a Linux or OS X workstation:

'rsync -av rsync://data.sbgrid.org/10.15785/SBGRID/325 .' (Harvard Medical School, USA)

Depending on your location, faster access may be available from a Tier 1 site closer to your location

'rsync -av rsync://sbgrid.icm.uu.se/10.15785/SBGRID/325 .' (Uppsala University, Sweden)

'rsync -av rsync://sbgrid.pasteur.edu.uy/10.15785/SBGRID/325 .' (Institut Pasteur de Montevideo, Uruguay)

'rsync -av rsync://sbgrid.ncpss.org/10.15785/SBGRID/325 .' (Shanghai Institutes for Biological Sciences, China)

3. After the transfer is completed, please issue the following command to verify data integrity:

'cd 325 ; shasum -c files.sha'

Storage requirements: 3.2G

Biological Sample:

human PcdhgB3 EC1-4

Dataset Type:

X-Ray Diffraction

Subject Composition:

Protein

Collection Facility:

24-ID-E, NE-CAT, APS, Chicago, IL

Data Creation Date:

Nov. 19, 2015

Related Datasets:

None


Cite this Dataset

Nicoludis, JM; Gaudet, R. 2016. "X-Ray Diffraction data for: human PcdhgB3 EC1-4. PDB Code 5K8R", SBGrid Data Bank, V1, https://doi.org/10.15785/SBGRID/325.

Download Citation

Dataset Description

Native data

Project Members

Name Additional Roles Affiliation While Working on the Project
John M NicoludisData Collector, DepositorGraduate Student
Rachelle GaudetPIHarvard University

Reprocessing Instructions

Molecular replacement required iterative searches of individual extracellular cadherin repeat domains from PDB ID 4zi9

Reprocessing Data

About Reprocessing

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9792

Sweep:

SWEEP1

Files:

/programs/datagrid/325/RG002_02_1_###.img

Images:

1 - 180

Beam:

(150.51, 158.82) -> (150.51, 158.89)

Distance:

350.0 -> 348.95

Spacegroup:

C 2 2 21

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.45 6.65 2.45
Low resolution limit 64.4 64.42 2.49
Completeness 100.0 100.0 100.0
Multiplicity 6.7 6.3 6.6
I/sigma 7.1 16.5 1.1
Rmerge 0.166 0.046 1.84
CC half 0.994 0.998 0.325
Anomalous completeness 99.7 99.8 99.6
Anomalous multiplicity 3.5 3.5 3.5
Cell 128.801 161.115 53.623 90.0 90.0 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9792

Sweep:

SWEEP1

Files:

/programs/datagrid/325/RG002_02_1_###.img

Images:

1 - 180

Beam:

(150.51, 158.82) -> (150.51, 158.84)

Distance:

350.0 -> 347.9

Spacegroup:

C 2 2 21

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.84 7.7 2.84
Low resolution limit 44.64 44.65 2.89
Completeness 99.9 99.6 100.0
Multiplicity 7.1 6.4 7.3
I/sigma 20.8 53.9 3.5
Rmerge 0.084 0.019 0.619
CC half 0.999 1.0 0.883
Anomalous completeness 99.5 99.8 99.5
Anomalous multiplicity 3.8 3.8 3.8
Cell 128.84 161.23 53.61 90.0 90.0 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9792

Sweep:

SWEEP1

Files:

/programs/datagrid/325/RG002_02_1_###.img

Images:

1 - 180

Beam:

(150.51, 158.82) -> (150.51, 158.82)

Distance:

350.0 -> 348.54

Spacegroup:

C 2 2 21

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.49 6.75 2.49
Low resolution limit 53.62 53.63 2.53
Completeness 99.9 99.8 99.8
Multiplicity 7.2 6.4 7.3
I/sigma 14.7 49.6 1.0
Rmerge 0.12 0.022 2.052
CC half 0.998 1.0 0.467
Anomalous completeness 99.5 99.7 99.5
Anomalous multiplicity 3.8 3.8 3.8
Cell 128.84 161.24 53.62 90.0 90.0 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9792

Sweep:

SWEEP1

Files:

/programs/datagrid/325/RG002_02_1_###.img

Images:

1 - 180

Beam:

(150.51, 158.82) -> (150.51, 158.8)

Distance:

350.0 -> 348.75

Spacegroup:

C 2 2 2

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 3.11 8.42 3.11
Low resolution limit 36.41 36.41 3.17
Completeness 43.8 12.5 1.9
Multiplicity 3.3 1.0 1.0
I/sigma 4.2 5.3 1.8
Rmerge 0.093 0.0 0.0
CC half 0.987 0.998 0.0
Anomalous completeness 31.8 0.8 0.0
Anomalous multiplicity 2.0 2.0 2.0
Cell 128.847 161.216 53.627 90.0 90.0 90.0

License and Terms of use

License: CC0

Terms: Our Community Norms as well as good scientific practices expect that proper credit is given via citation. Please use the data citation, as generated by the SBGrid Data Bank.