6MNA
Crystal structure of LpqN involved in cell envelope biogenesis of Mycobacterium tuberculosis
- PDB DOI: https://doi.org/10.2210/pdb6MNA/pdb
- Classification: LIPID BINDING PROTEIN
- Organism(s): Mycobacterium tuberculosis H37Rv
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2018-10-01 Released: 2019-09-18
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.217
- R-Value Work: 0.184
- R-Value Observed: 0.186
wwPDB Validation 3D Report Full Report
Currently 6MNA does not have a validation slider image.
This is version 3.0 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Probable conserved lipoprotein LpqN | 234 | Mycobacterium tuberculosis H37Rv | Mutation(s): 0 Gene Names: lpqN, Rv0583c |  | |
UniProt | |||||
Find proteins for O53780 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore O53780 Go to UniProtKB: O53780 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O53780 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900093 Query on PRD_900093 | B | 6-decanoyl-trehalose | Oligosaccharide / Substrate analog |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.217
- R-Value Work: 0.184
- R-Value Observed: 0.186
- Space Group: I 4
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 79.554 | α = 90 |
| b = 79.554 | β = 90 |
| c = 59.959 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| SCALA | data scaling |
| PHASER | phasing |
Structure Validation
Currently 6MNA does not have a validation slider image.
Entry History
Deposition Data
- Released Date: 2019-09-18 Deposition Author(s): Rajavel, M., Su, C.C., Yu, E.W.
Revision History (Full details and data files)
- Version 1.0: 2019-09-18
Type: Initial release - Version 1.1: 2019-11-06
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 3.0: 2023-10-11
Changes: Atomic model, Data collection, Database references, Refinement description, Structure summary
