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Download EndnoteCrystal structure of a Putative Zinc Peptidase (NP_812461.1) from Bacteroides thetaiotaomicron VPI-5482 at 2.31 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3CT9
Crystal structure of a putative zinc peptidase (NP_812461.1) from Bacteroides thetaiotaomicron VPI-5482 at 2.31 A resolution
- DOI: 10.2210/pdb3CT9/pdb
- Classification: HYDROLASE
- Organism(s): Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482)
- Expression System: Escherichia coli
- Deposited: 2008-04-11 Released: 2008-05-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.31 Å
- R-Value Free: 0.253
- R-Value Work: 0.194
wwPDB Validation 3D Report Full Report
This is version 1.2 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by: Sequence | Structure
Entity ID: 1 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Acetylornithine deacetylase | A, B | 356 | Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) | Mutation(s): 0 |
Find proteins for Q8A1V9 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482)) Go to UniProtKB: Q8A1V9 | ||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| IOD Query on IOD | A, B | IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M |  | Ligand Interaction | |
| CL Query on CL | A, B | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | Ligand Interaction | |
| EDO Query on EDO | A, B | 1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| PEG Query on PEG | B | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.31 Å
- R-Value Free: 0.253
- R-Value Work: 0.194
- Space Group: P 1 21 1
- Diffraction Data DOI:
10.18430/M33CT9 Protein Diffraction
Unit Cell:
| Length (Å) | Angle (°) |
|---|---|
| a = 51.340 | α = 90.00 |
| b = 67.250 | β = 94.28 |
| c = 107.890 | γ = 90.00 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| XSCALE | data scaling |
| PHENIX | refinement |
| MAR345 | data collection |
| XDS | data reduction |
| SOLVE | phasing |
| PDB_EXTRACT | data extraction |
| REFMAC | refinement |
Entry History
Deposition Data
- Deposited Date: 2008-04-11
- Released Date: 2008-05-06
- Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History
- Version 1.0: 2008-05-06
Type: Initial release - Version 1.1: 2011-07-13
Type: Advisory, Version format compliance - Version 1.2: 2017-10-25
Type: Author supporting evidence, Refinement description
