1L9N
Three-dimensional structure of the human transglutaminase 3 enzyme: binding of calcium ions change structure for activation
- PDB DOI: https://doi.org/10.2210/pdb1L9N/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): Yes
- Deposited: 2002-03-26 Released: 2002-05-29
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.233
- R-Value Work: 0.189
- R-Value Observed: 0.241
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Protein-glutamine glutamyltransferase E3 | 692 | Homo sapiens | Mutation(s): 1 Gene Names: TGM3 EC: 2.3.2.13 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q08188 (Homo sapiens) Explore Q08188 Go to UniProtKB: Q08188 | |||||
PHAROS: Q08188 GTEx: ENSG00000125780 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q08188 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| BGL Query on BGL | C [auth A], H [auth B] | 2-O-octyl-beta-D-glucopyranose C14 H28 O6 BVHPDIWLWHHJPD-RKQHYHRCSA-N |  | ||
| CA Query on CA | D [auth A] F [auth A] G [auth A] I [auth B] K [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| CL Query on CL | E [auth A], J [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.233
- R-Value Work: 0.189
- R-Value Observed: 0.241
- Space Group: P 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 57.488 | α = 93.23 |
| b = 116.537 | β = 92.99 |
| c = 60.768 | γ = 89.51 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| AMoRE | phasing |
| CNS | refinement |
Entry History
Deposition Data
- Released Date: 2002-05-29 Deposition Author(s): Ahvazi, B.
Revision History (Full details and data files)
- Version 1.0: 2002-05-29
Type: Initial release - Version 1.1: 2008-04-28
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2021-10-27
Changes: Database references, Structure summary - Version 1.5: 2023-08-16
Changes: Data collection, Refinement description
