Download MendeleyCrystal structure of a hypothetical protein (BF0371) from Bacteroides fragilis NCTC 9343 at 1.65 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4K05 | pdb_00004k05
Crystal structure of a DUF1343 family protein (BF0371) from Bacteroides fragilis NCTC 9343 at 1.65 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4K05/pdb
- Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
- Organism(s): Bacteroides fragilis NCTC 9343
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-04-03 Released: 2013-04-17
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.183 (Depositor), 0.190 (DCC)
- R-Value Work: 0.149 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.151 (Depositor)
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 |
| Conserved hypothetical exported protein | 399 | Bacteroides fragilis NCTC 9343 | Mutation(s): 0 Gene Names: BF0371, BF9343_0362 |  | |
UniProt | |||||
Find proteins for A0A380YTY6 (Bacteroides fragilis (strain ATCC 25285 / DSM 2151 / CCUG 4856 / JCM 11019 / LMG 10263 / NCTC 9343 / Onslow / VPI 2553 / EN-2)) Explore A0A380YTY6 Go to UniProtKB: A0A380YTY6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A380YTY6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 1PE Query on 1PE | G [auth B] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | ||
| FMT Query on FMT | F [auth B] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N |  | ||
| K Query on K | C [auth A], D [auth B], E [auth B] | POTASSIUM ION K NPYPAHLBTDXSSS-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: 1.65 Å
- R-Value Free: 0.183 (Depositor), 0.190 (DCC)
- R-Value Work: 0.149 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.151 (Depositor)
Diffraction Data: https://doi.org/10.18430/M34K05
Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 54.08 | α = 90 |
| b = 88.41 | β = 90 |
| c = 159.54 | 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 |
| autoSHARP | phasing |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2013-04-17 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2013-04-17
Type: Initial release - Version 1.1: 2014-12-24
Changes: Structure summary - Version 1.2: 2017-11-15
Changes: 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: 2024-11-20
Changes: Data collection, Structure summary
