X-Ray Diffraction data from Mouse Protocadherin-15 EC4-5, source of 5T4M structure

Data DOI: 10.15785/SBGRID/362 | ID: 362

5T4M Coordinates: Viewer, PDB (RCSB) (PDBe), MMDB

Gaudet Laboratory, Harvard University

Release Date: Feb. 14, 2017

Data Access Instructions

1. If this dataset is locally available, it should be accessable at /programs/datagrid/362

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/362 .' (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/362 .' (Uppsala University, Sweden)

'rsync -av rsync://sbgrid.pasteur.edu.uy/10.15785/SBGRID/362 .' (Institut Pasteur de Montevideo, Uruguay)

'rsync -av rsync://sbgrid.ncpss.org/10.15785/SBGRID/362 .' (Shanghai Institutes for Biological Sciences, China)

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

'cd 362 ; shasum -c files.sha'

Storage requirements: 1.6G

Biological Sample:

Mouse Protocadherin-15 EC4-5

Dataset Type:

X-Ray Diffraction

Subject Composition:

Ligand, Protein

Collection Facility:

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

Data Creation Date:

April 21, 2010

Related Datasets:

361


Cite this Dataset

Powers, RE; Sotomayor, M; Gaudet, R. 2017. "X-Ray Diffraction data for: Mouse Protocadherin-15 EC4-5. PDB Code 5T4M", SBGrid Data Bank, V1, https://doi.org/10.15785/SBGRID/362.

Download Citation

Dataset Description

Native dataset used to determine low resolution structure of Mouse Protocadherin-15 EC4-5. The EC4-5 structure was then used as a molecular replacement search model to determine the structure of Human Protocadherin-15 EC3-5 (PDB Code: 5T4M)

Project Members

Name Additional Roles Affiliation While Working on the Project
Robert E PowersDepositorBiophysics Graduate Program, Harvard University, Boston MA 02115
Rachelle GaudetDepartment of Molecular and Cellular Biology, Harvard University, Cambridge MA 02138
Marcos SotomayorData CollectorDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus OH 43210
Rachelle GaudetPIHarvard University

Reprocessing Instructions

none

Reprocessing Data

About Reprocessing

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97916

Sweep:

SWEEP1

Files:

/programs/datagrid/362/puck_D16_1_###.img

Images:

1 - 90

Beam:

(155.99, 165.44) -> (155.99, 165.48)

Distance:

449.99 -> 449.04

Spacegroup:

C 1 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 4.57 12.39 4.57
Low resolution limit 72.32 72.33 4.65
Completeness 93.5 88.9 95.8
Multiplicity 1.9 2.0 2.0
I/sigma 1.3 2.2 0.8
Rmerge 0.397 0.308 0.46
CC half 0.82 0.832 0.804
Anomalous completeness 71.5 80.6 73.6
Anomalous multiplicity 1.1 1.1 1.1
Cell 144.481 250.635 73.214 90.0 90.148 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97916

Sweep:

SWEEP1

Files:

/programs/datagrid/362/puck_D16_1_###.img

Images:

1 - 90

Beam:

(155.99, 165.44) -> (155.99, 165.43)

Distance:

449.99 -> 446.77

Spacegroup:

P 31 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 5.26 14.08 5.26
Low resolution limit 39.66 39.66 5.36
Completeness 99.7 95.8 100.0
Multiplicity 5.2 4.5 5.6
I/sigma 18.4 33.6 9.9
Rmerge 0.049 0.025 0.141
CC half 0.999 0.999 0.987
Anomalous completeness 97.8 93.8 99.3
Anomalous multiplicity 2.8 2.8 2.8
Cell 144.22 144.22 73.11 90.0 90.0 120.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97916

Sweep:

SWEEP1

Files:

/programs/datagrid/362/puck_D16_1_###.img

Images:

1 - 90

Beam:

(155.99, 165.44) -> (155.99, 165.43)

Distance:

449.99 -> 447.42

Spacegroup:

P 31 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 5.56 14.84 5.56
Low resolution limit 39.65 39.65 5.66
Completeness 99.7 94.4 100.0
Multiplicity 5.1 4.4 5.3
I/sigma 19.8 33.9 9.4
Rmerge 0.045 0.024 0.128
CC half 0.999 0.999 0.994
Anomalous completeness 97.6 92.7 98.3
Anomalous multiplicity 2.8 2.8 2.8
Cell 144.2 144.2 73.1 90.0 90.0 120.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97916

Sweep:

SWEEP1

Files:

/programs/datagrid/362/puck_D16_1_###.img

Images:

1 - 90

Beam:

(155.99, 165.44) -> (155.99, 165.42)

Distance:

449.99 -> 444.95

Spacegroup:

P 31 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 4.02 10.82 4.02
Low resolution limit 36.3 36.3 4.09
Completeness 85.1 98.5 98.6
Multiplicity 3.3 4.8 4.3
I/sigma 8.7 30.2 2.8
Rmerge 0.074 0.035 0.492
CC half 0.997 0.998 0.812
Anomalous completeness 66.4 99.0 92.9
Anomalous multiplicity 2.0 2.0 2.0
Cell 143.241 143.241 72.607 90.0 90.0 120.0

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.