Download MendeleyCrystal structure of putative fructosamine-3-kinase (YP_290396.1) from THERMOBIFIDA FUSCA YX-ER1 at 1.85 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3F7W | pdb_00003f7w
Crystal structure of putative fructosamine-3-kinase (YP_290396.1) from THERMOBIFIDA FUSCA YX-ER1 at 1.85 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3F7W/pdb
- Entry: 3F7W supersedes: 3D1U
- Classification: TRANSFERASE
- Organism(s): Thermobifida fusca YX
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2008-11-10 Released: 2008-11-25
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.204 (Depositor), 0.200 (DCC)
- R-Value Work: 0.165 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.167 (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 |
| putative fructosamine-3-kinase | 288 | Thermobifida fusca YX | Mutation(s): 0 Gene Names: Tfu_2340, YP_290396.1 |  | |
UniProt | |||||
Find proteins for Q47ME9 (Thermobifida fusca (strain YX)) Explore Q47ME9 Go to UniProtKB: Q47ME9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q47ME9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PEG Query on PEG | J [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | E [auth A], F [auth A], G [auth A], H [auth A], I [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CL Query on CL | C [auth A], D [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| UNL Query on UNL | B [auth A] | Unknown ligand VEXZGXHMUGYJMC-UHFFFAOYSA-M | |||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.204 (Depositor), 0.200 (DCC)
- R-Value Work: 0.165 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.167 (Depositor)
Diffraction Data: https://doi.org/10.18430/M33F7W
Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 91.178 | α = 90 |
| b = 91.178 | β = 90 |
| c = 82.049 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2008-11-25 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
- This entry supersedes: 3D1U
Revision History (Full details and data files)
- Version 1.0: 2008-11-25
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Refinement description, Version format compliance - Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-27
Changes: Data collection, Structure summary
