| PDB ID | 8ZZK | pdb_00008zzk |
| PDB-Dev ID | PDBDEV_00000020 |
| Structure Title | Structure of the S. cerevisiae nuclear pore complex cytoplasmic mRNA export platform, Nup82 |
| Structure Authors | Fernandez-Martinez, J.; Kim, S.J.; Shi, Y.; Upla, P.; Pellarin, R.; Gagnon, M.; Chemmama, I.E.; Wang, J.; Nudelman, I.; Zhang, W.; Williams, R.; Rice, W.J.; Stokes, D.L.; Zenklusen, D.; Chait, B.T.; Sali, A.; Rout, M.P. |
| Deposited on | 2018-06-06 |
1.1. Summary ?
This entry consists of 1 model(s). A total of 37 dataset(s) were used to build this entry.
| Name | Type | Count |
|---|---|---|
|
2DEM class average
|
Experimental data
|
21
|
|
Crosslinking-MS data
|
Experimental data
|
3
|
|
SAS data
|
Experimental data
|
3
|
|
Comparative model
|
Starting model
|
6
|
|
Experimental model
|
Starting model
|
4
|
1.2. Overall quality ?
This validation report contains model quality assessments for all structures. For more detail for each assessment, use the dropdown menus at the top of this page. Number of plots is limited to 256.
Data quality and fit to model assessments for other datasets and model uncertainty are under development.
The following software was used in the production of this report:
- IHMValidation Version 3.0
- Python-IHM Version 2.5
- ATSAS Version 3.2.1 (r14885)
Acknowledgments
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The development of integrative model validation metrics, implementation of a model validation pipeline, and creation of a validation report for integrative structures are funded by NSF awards to the PDB-IHM team (DBI-1756248, DBI-2112966, DBI-2112967, DBI-2112968, and DBI-1756250) and awards from NSF, NIH, and DOE to the RCSB PDB (DBI-2321666, R01GM157729, and DE-SC0019749). The PDB-IHM team and members of the Sali lab contributed model validation metrics and software packages.
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Dr. Jill Trewhella, Dr. Dina Schneidman, and members of the SASBDB repository are acknowledged for their advice and support in implementing SAS validation methods. Team members from the labs of Dr. Juri Rappsilber, Dr. Alexander Leitner, Dr. Andrea Graziadei, and members of PRIDE database are acknowledged for their advice and support in implementing crosslinking-MS validation methods. We are grateful to Dr. Shruthi Viswanath for discussions about uncertainty assessment of integrative structural models.
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Members of the wwPDB Integrative/Hybrid Methods Task Force provided recommendations and community support for the project.