Download MendeleyCrystal structure of biotin protein ligase-like protein of unknown function (YP_612389.1) from Silicibacter sp. TM1040 at 1.70 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3BFM
Crystal structure of a biotin protein ligase-like protein of unknown function (tm1040_0394) from silicibacter sp. tm1040 at 1.70 A resolution
- DOI: 10.2210/pdb3BFM/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Ruegeria sp. TM1040
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-11-21 Released: 2007-12-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.226
- R-Value Work: 0.179
- R-Value Observed: 0.182
wwPDB Validation 3D Report Full Report
This is version 1.3 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Biotin protein ligase-like protein of unknown function | A | 235 | Ruegeria sp. TM1040 | Mutation(s): 0 Gene Names: YP_612389.1, TM1040_0394 |  |
Find proteins for Q1GJN9 (Ruegeria sp. (strain TM1040)) Explore Q1GJN9 Go to UniProtKB: Q1GJN9 | |||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 2PE Query on 2PE | A | NONAETHYLENE GLYCOL C18 H38 O10 YZUUTMGDONTGTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| CA Query on CA | A | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | Ligand Interaction | |
| 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: 1.70 Å
- R-Value Free: 0.226
- R-Value Work: 0.179
- R-Value Observed: 0.182
- Space Group: C 1 2 1
- Diffraction Data DOI: 10.18430/M33BFM Protein Diffraction
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 86.76 | α = 90 |
| b = 36.56 | β = 99.28 |
| c = 71 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| XDS | data reduction |
| SHELXD | phasing |
| SHARP | phasing |
Entry History
Deposition Data
- Deposited Date: 2007-11-21
- Released Date: 2007-12-04 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
