Limited Operations 2024/02/27 7AM ET - 10AM ET

The SBDB will be operating at a reduced level between 7AM and 10AM 2024/02/27 due to underlying system maintance. New dataset registrations, dataset depositions, downloads of published datasets from HMS, deposition credential requests, and other inquiries will be unavailable during this maintance.

X-Ray Diffraction data from RT52A (recombinant HIV reverse transcriptase) from E. coli, source of 5C25 structure

Data DOI: 10.15785/SBGRID/168 | ID: 168

Publication DOI: 10.1016/j.bmcl.2015.06.074

5C25 Coordinates: Viewer, PDB (RCSB) (PDBe), MMDB

Anderson Laboratory, Yale University School of Medicine

Release Date: Sept. 8, 2015

Data Access Instructions

1. If this dataset is locally available, it should be accessable at /programs/datagrid/168

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/168 .' (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/168 .' (Uppsala University, Sweden)

'rsync -av rsync://sbgrid.pasteur.edu.uy/10.15785/SBGRID/168 .' (Institut Pasteur de Montevideo, Uruguay)

'rsync -av rsync://sbgrid.ncpss.org/10.15785/SBGRID/168 .' (Shanghai Institutes for Biological Sciences, China)

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

'cd 168 ; shasum -c files.sha'

Storage requirements: 3.2G

Biological Sample:

RT52A (recombinant HIV reverse transcriptase) from E. coli

Dataset Type:

X-Ray Diffraction

Subject Composition:

Ligand, Protein

Collection Facility:

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

Data Creation Date:

April 5, 2015

Related Datasets:

None


Cite this Dataset

Chan, AH; Anderson, K. 2015. "X-Ray Diffraction data for: RT52A (recombinant HIV reverse transcriptase) from E. coli. PDB Code 5C25", SBGrid Data Bank, V1, https://doi.org/10.15785/SBGRID/168.

Download Citation

Dataset Description

Crystal Structure of HIV-1 Reverse Transcriptase in Complex with 6-((4-((4-cyanophenyl)amino)-1,3,5-triazin-2-yl)amino)-5,7-dimethyl-2-naphthonitrile (JLJ639), a Non-nucleoside Inhibitor. 180 x 1 degree images collected for processing. Native data set collected on 24-ID-E at APS

Project Members

Name Additional Roles Affiliation While Working on the Project
Albert H ChanData Collector, DepositorYale University School of Medicine
Karen AndersonPIYale University School of Medicine

Reprocessing Instructions

Use XDS for best results. Beam center should be ORGX=1543.85 ORGY=1475.32 (pixels).

Reprocessing Data

About Reprocessing

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97915

Sweep:

SWEEP1

Files:

/programs/datagrid/168/RT6393_1_###.img

Images:

1 - 180

Beam:

(151.4, 158.39) -> (151.4, 158.45)

Distance:

344.3 -> 342.24

Spacegroup:

C 1 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.44 6.62 2.44
Low resolution limit 58.3 58.31 2.48
Completeness 99.6 98.0 99.9
Multiplicity 3.6 3.5 3.7
I/sigma 9.5 27.6 1.0
Rmerge 0.169 0.035 1.385
CC half 0.984 0.997 0.303
Anomalous completeness 94.0 90.5 94.8
Anomalous multiplicity 1.9 1.9 1.9
Cell 161.84 72.68 109.04 90.0 100.64 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97915

Sweep:

SWEEP1

Files:

/programs/datagrid/168/RT6393_1_###.img

Images:

1 - 180

Beam:

(151.4, 158.39) -> (151.4, 158.45)

Distance:

344.3 -> 342.07

Spacegroup:

C 1 2 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 2.45 6.65 2.45
Low resolution limit 66.1 66.12 2.49
Completeness 99.6 97.9 99.9
Multiplicity 3.6 3.5 3.7
I/sigma 9.7 28.0 1.0
Rmerge 0.166 0.035 1.305
CC half 0.986 0.997 0.34
Anomalous completeness 94.0 90.8 94.4
Anomalous multiplicity 1.9 1.9 1.9
Cell 161.83 72.67 109.04 90.0 100.64 90.0

Version:

version unreported

Project:

AUTOMATIC

Crystal:

DEFAULT

Sequence Length:

0

Wavelength:

SAD - 0.97915

Sweep:

SWEEP1

Files:

/programs/datagrid/168/RT6393_1_###.img

Images:

1 - 180

Beam:

(151.4, 158.39) -> (151.4, 158.42)

Distance:

344.3 -> 342.57

Spacegroup:

P 1

For AUTOMATIC/DEFAULT/SAD:

ALL LOW HIGH
High resolution limit 3.57 9.7 3.57
Low resolution limit 106.93 106.98 3.63
Completeness 99.1 99.6 96.9
Multiplicity 1.9 2.0 2.0
I/sigma 62.5 241.4 21.1
Rmerge 0.562 0.19 0.859
CC half 0.117 0.916 0.335
Anomalous completeness 83.9 95.6 80.9
Anomalous multiplicity 1.1 1.1 1.1
Cell 72.566 88.517 108.817 80.233 89.947 65.823

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.