X-Ray Diffraction data from Designed repeat binding protein with Frizzled-8 CRD, source of 6NDZ structure

Data DOI: 10.15785/SBGRID/638 | ID: 638

Publication DOI: 0.1038/s41594-019-0224-z

6NDZ Coordinates: Viewer, PDB (RCSB) (PDBe), MMDB

Garcia Laboratory, Stanford University

Release Date: May 24, 2019

Data Access Instructions

1. If this dataset is locally available, it should be accessable at /programs/datagrid/638

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/638 .' (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/638 .' (Uppsala University, Sweden)

'rsync -av rsync://sbgrid.pasteur.edu.uy/10.15785/SBGRID/638 .' (Institut Pasteur de Montevideo, Uruguay)

'rsync -av rsync://sbgrid.ncpss.org/10.15785/SBGRID/638 .' (Shanghai Institutes for Biological Sciences, China)

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

'cd 638 ; shasum -c files.sha'

Storage requirements: 11G

Biological Sample:

Designed repeat binding protein with Frizzled-8 CRD

Dataset Type:

X-Ray Diffraction

Subject Composition:

Protein

Collection Facility:

ALS beamline 8.2.1

Data Creation Date:

Sept. 15, 2016

Related Datasets:

None


Cite this Dataset

Jude, KM; Garcia, KC; Miao, Y; Garcia, K. 2019. "X-Ray Diffraction data for: Designed repeat binding protein with Frizzled-8 CRD. PDB Code 6NDZ", SBGrid Data Bank, V1, https://doi.org/10.15785/SBGRID/638.

Download Citation

Dataset Description

Merged datasets for structure solution by MR

Project Members

Name Additional Roles Affiliation While Working on the Project
Kevin M JudeDepositorStanford University, HHMI
K C GarciaStanford University, HHMI
Yi MiaoData CollectorStanford University
K. Christopher GarciaPIStanford University

Reprocessing Instructions

Merged C13 and C15 datasets

Reprocessing Data

About Reprocessing

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97964

Sweep:

SWEEP2

Files:

/programs/datagrid/638/C15_1_#####.img

Images:

1 - 220

Beam:

(147.1, 156.0) -> (147.1, 155.65)

Distance:

350.0 -> 348.95

Spacegroup:

P 1 21 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.2 5.97 2.2
Low resolution limit 65.93 65.96 2.24
Completeness 94.2 99.8 75.4
Multiplicity 4.8 5.5 2.1
I/sigma 5.4 12.8 0.8
Rmerge 0.127 0.074 0.951
CC half 0.994 0.997 0.311
Anomalous completeness 86.1 97.6 49.0
Anomalous multiplicity 2.6 2.6 2.6
Cell 109.48 80.49 114.95 90.0 90.14 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97964

Sweep:

SWEEP2

Files:

/programs/datagrid/638/C15_1_#####.img

Images:

1 - 220

Beam:

(147.1, 156.0) -> (147.1, 155.66)

Distance:

350.0 -> 349.68

Spacegroup:

P 1 21 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.2 5.97 2.2
Low resolution limit 65.93 65.96 2.24
Completeness 94.2 99.8 75.4
Multiplicity 4.8 5.5 2.1
I/sigma 5.5 13.3 0.8
Rmerge 0.126 0.074 0.953
CC half 0.995 0.996 0.305
Anomalous completeness 86.0 97.5 49.0
Anomalous multiplicity 2.6 2.6 2.6
Cell 109.48 80.49 114.95 90.0 90.14 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97964

Sweep:

SWEEP2

Files:

/programs/datagrid/638/C15_1_#####.img

Images:

1 - 220

Beam:

(147.1, 156.0) -> (147.1, 155.66)

Distance:

350.0 -> 348.54

Spacegroup:

P 21 21 21

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.19 5.94 2.19
Low resolution limit 115.15 115.31 2.23
Completeness 98.4 100.0 81.0
Multiplicity 10.6 10.9 6.3
I/sigma 3.8 26.7 0.1
Rmerge 0.2 0.092 -6.098
CC half 0.996 0.997 0.377
Anomalous completeness 97.6 100.0 73.9
Anomalous multiplicity 5.6 5.6 5.6
Cell 80.439 109.267 115.152 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.