Download MendeleyCrystal structure of a putative alpha-L-fucosidase (BT_0435) from Bacteroides thetaiotaomicron VPI-5482 at 1.80 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4H41
Crystal structure of a putative alpha-L-fucosidase (BT_0435) from Bacteroides thetaiotaomicron VPI-5482 at 1.80 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4H41/pdb
- Classification: HYDROLASE
- Organism(s): Bacteroides thetaiotaomicron VPI-5482
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-09-14 Released: 2012-10-10
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.158
- R-Value Work: 0.133
- R-Value Observed: 0.134
wwPDB Validation 3D Report Full Report
This is version 1.5 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 alpha-L-fucosidase | 340 | Bacteroides thetaiotaomicron VPI-5482 | Mutation(s): 0 Gene Names: BT_0435, NP_809348.1 |  | |
UniProt | |||||
Find proteins for Q8AAM9 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q8AAM9 Go to UniProtKB: Q8AAM9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8AAM9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 6 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PE4 Query on PE4 | G [auth A], H [auth A] | 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL C16 H34 O8 PJWQOENWHPEPKI-UHFFFAOYSA-N |  | ||
| PG6 Query on PG6 | O [auth B], P [auth B] | 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE C12 H26 O6 DMDPGPKXQDIQQG-UHFFFAOYSA-N |  | ||
| 1PE Query on 1PE | E [auth A] F [auth A] I [auth A] N [auth B] R [auth B] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | ||
| PG4 Query on PG4 | J [auth A], K [auth A], L [auth A], S [auth B], W [auth C] | TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N |  | ||
| NA Query on NA | Q [auth B] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
| UNL Query on UNL | D [auth A], M [auth B], T [auth C] | Unknown ligand FKNQFGJONOIPTF-UHFFFAOYSA-N | |||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.158
- R-Value Work: 0.133
- R-Value Observed: 0.134
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/M34H41
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 53.67 | α = 90 |
| b = 125.7 | β = 103.72 |
| c = 80.01 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| PDB_EXTRACT | data extraction |
| SHELX | phasing |
| SHARP | phasing |
| SCALA | data scaling |
| BUSTER-TNT | refinement |
| MOSFLM | data reduction |
| SHELXD | phasing |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2012-10-10 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2012-10-10
Type: Initial release - Version 1.1: 2012-10-17
Changes: Refinement description - Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description - Version 1.3: 2018-01-24
Changes: Database references - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-10-16
Changes: Data collection, Structure summary
