Download MendeleyCrystal structure of a putative dipeptidyl aminopeptidase IV (BACOVA_01349) from Bacteroides ovatus ATCC 8483 at 2.48 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4Q1V | pdb_00004q1v
Crystal structure of a putative dipeptidyl aminopeptidase IV (BACOVA_01349) from Bacteroides ovatus ATCC 8483 at 2.48 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4Q1V/pdb
- Classification: HYDROLASE
- Organism(s): Bacteroides ovatus ATCC 8483
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2014-04-04 Released: 2014-05-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.48 Å
- R-Value Free: 0.207 (Depositor), 0.210 (DCC)
- R-Value Work: 0.171 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.173 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.4 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| putative dipeptidyl aminopeptidase IV | 710 | Bacteroides ovatus ATCC 8483 | Mutation(s): 0 Gene Names: BACOVA_01349, ZP_02064383.1 EC: 3.4 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PEG Query on PEG | C [auth A], D [auth A], F [auth B] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| MG Query on MG | E [auth A], G [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
| 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: 2.48 Å
- R-Value Free: 0.207 (Depositor), 0.210 (DCC)
- R-Value Work: 0.171 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.173 (Depositor)
Diffraction Data: https://doi.org/10.18430/M34Q1V
Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 92.487 | α = 90 |
| b = 133.703 | β = 90 |
| c = 159.127 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| PDB_EXTRACT | data extraction |
| SHELX | phasing |
| SHARP | phasing |
| XSCALE | data scaling |
| BUSTER-TNT | refinement |
| XDS | data reduction |
| SHELXD | phasing |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2014-05-07 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2014-05-07
Type: Initial release - Version 1.1: 2017-11-22
Changes: Refinement description - Version 1.2: 2018-01-24
Changes: Database references - Version 1.3: 2023-02-01
Changes: Database references, Derived calculations - Version 1.4: 2024-10-30
Changes: Data collection, Structure summary
