Download MendeleyStructure of a nucleoporin complex
Davenport, A.M., Huber, F.M., Hoelz, A.To be published.
4IF6 | pdb_00004if6
Structure of NAD-dependent protein deacetylase sirtuin-1 (closed state, 2.25 A)
- PDB DOI: https://doi.org/10.2210/pdb4IF6/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-12-14 Released: 2013-10-23
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.25 Å
- R-Value Free: 0.187 (Depositor), 0.190 (DCC)
- R-Value Work: 0.156 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.159 (Depositor)
This is version 1.2 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| NAD-dependent protein deacetylase sirtuin-1 | 281 | Homo sapiens | Mutation(s): 0 Gene Names: SIR2L1, SIRT1 EC: 3.5.1 (PDB Primary Data), 2.3.1 (UniProt), 2.3.1.286 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q96EB6 (Homo sapiens) Explore Q96EB6 Go to UniProtKB: Q96EB6 | |||||
PHAROS: Q96EB6 GTEx: ENSG00000096717 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q96EB6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| NAD-dependent protein deacetylase sirtuin-1 | 31 | Homo sapiens | Mutation(s): 0 Gene Names: SIRT1, SIR2L1 EC: 2.3.1 (UniProt), 2.3.1.286 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q96EB6 (Homo sapiens) Explore Q96EB6 Go to UniProtKB: Q96EB6 | |||||
PHAROS: Q96EB6 GTEx: ENSG00000096717 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q96EB6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| APR Query on APR | D [auth A] | ADENOSINE-5-DIPHOSPHORIBOSE C15 H23 N5 O14 P2 SRNWOUGRCWSEMX-KEOHHSTQSA-N |  | ||
| ZN Query on ZN | C [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.25 Å
- R-Value Free: 0.187 (Depositor), 0.190 (DCC)
- R-Value Work: 0.156 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.159 (Depositor)
Space Group: P 32 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 92.662 | α = 90 |
| b = 92.662 | β = 90 |
| c = 97.7 | γ = 120 |
| Software Name | Purpose |
|---|---|
| SCALEPACK | data scaling |
| SHARP | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data collection |
| HKL-2000 | data reduction |
Entry History
Deposition Data
- Released Date: 2013-10-23 Deposition Author(s): Davenport, A.M., Huber, F.M., Hoelz, A.
Revision History (Full details and data files)
- Version 1.0: 2013-10-23
Type: Initial release - Version 1.1: 2013-11-06
Changes: Database references, Structure summary - Version 1.2: 2024-02-28
Changes: Data collection, Database references, Derived calculations
