X-Ray Diffraction data from Japanese encephalitis virus NS5, source of 4K6M structure

Data DOI: 10.15785/SBGRID/119 | ID: 119

Publication DOI: 10.1371/journal.ppat.1003549

4K6M Coordinates: Viewer, PDB (RCSB) (PDBe), MMDB

Gong Laboratory, Chinese Academy of Science, Wuhan Branch

Release Date: May 26, 2015

Data Access Instructions

1. If this dataset is locally available, it should be accessable at /programs/datagrid/119

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/119 .' (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/119 .' (Uppsala University, Sweden)

'rsync -av rsync://sbgrid.pasteur.edu.uy/10.15785/SBGRID/119 .' (Institut Pasteur de Montevideo, Uruguay)

'rsync -av rsync://sbgrid.ncpss.org/10.15785/SBGRID/119 .' (Shanghai Institutes for Biological Sciences, China)

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

'cd 119 ; shasum -c files.sha'

Storage requirements: 4.8G

Biological Sample:

Japanese encephalitis virus NS5

Dataset Type:

X-Ray Diffraction

Subject Composition:

Protein

Collection Facility:

Beamline BL17U1, SSRF, Shanghai, China

Data Creation Date:

Oct. 29, 2012

Related Datasets:

None


Cite this Dataset

Gong, P. 2015. "X-Ray Diffraction data for: Japanese encephalitis virus NS5. PDB Code 4K6M", SBGrid Data Bank, V1, https://doi.org/10.15785/SBGRID/119.

Download Citation

Dataset Description

native dataset of the full-length Japanese encephalitis virus NS5 crystal

Project Members

Name Additional Roles Affiliation While Working on the Project
Peng GongData Collector, DepositorState Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan, Hubei, China
Peng GongPIChinese Academy of Science, Wuhan Branch

Reprocessing Instructions

none

Reprocessing Data

About Reprocessing

Version:

version unreported

Reprocessing failed.

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9793

Sweep:

SWEEP1

Files:

/programs/datagrid/119/lu010_3_###.img

Images:

1 - 270

Beam:

(156.8, 154.1) -> (156.8, 153.79)

Distance:

280.0 -> 294.9

Spacegroup:

P 2 2 21

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 5.71 15.22 5.71
Low resolution limit 40.0 40.0 5.81
Completeness 61.3 57.1 63.0
Multiplicity 5.1 4.9 4.7
I/sigma 0.2 0.2 0.2
Rmerge 0.828 0.641 1.044
CC half 0.536 0.579 0.384
Anomalous completeness 52.8 50.6 53.3
Anomalous multiplicity 2.8 2.8 2.8
Cell 199.27 293.41 301.83 90.0 90.0 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9793

Sweep:

SWEEP1

Files:

/programs/datagrid/119/lu010_3_###.img

Images:

1 - 270

Beam:

(156.8, 154.1) -> (156.8, 155.15)

Distance:

280.0 -> 280.54

Spacegroup:

H 3

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.78 7.54 2.78
Low resolution limit 78.48 78.51 2.83
Completeness 99.2 99.0 99.9
Multiplicity 2.6 2.6 2.6
I/sigma 13.0 24.1 3.4
Rmerge 0.046 0.024 0.246
CC half 0.996 0.994 0.893
Anomalous completeness 89.9 94.4 90.2
Anomalous multiplicity 1.3 1.3 1.3
Cell 271.86 271.86 177.08 90.0 90.0 120.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.9793

Sweep:

SWEEP1

Files:

/programs/datagrid/119/lu010_3_###.img

Images:

1 - 270

Beam:

(156.8, 154.1) -> (156.8, 155.13)

Distance:

280.0 -> 280.26

Spacegroup:

H 3

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.42 6.57 2.42
Low resolution limit 54.09 54.1 2.46
Completeness 99.6 99.9 99.9
Multiplicity 2.6 2.7 2.6
I/sigma 6.7 14.7 1.2
Rmerge 0.074 0.035 0.61
CC half 0.995 0.996 0.623
Anomalous completeness 89.9 97.6 87.0
Anomalous multiplicity 1.4 1.4 1.4
Cell 271.572 271.572 176.916 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.