Download MendeleyManipulation of an existing crystal form unexpectedly results in interwoven packing networks with pseudo-translational symmetry
Reimer, J.M., Aloise, M.N., Powell, H.R., Schmeing, T.M.(2016) Acta Crystallogr D Biol Crystallogr 72: 1130-1136
5JNF | pdb_00005jnf
Crystal structure of the LgrA initiation module excluding the Asub domain: F-A-delta-sub
- PDB DOI: https://doi.org/10.2210/pdb5JNF/pdb
- Classification: LIGASE
- Organism(s): Brevibacillus parabrevis
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2016-04-29 Released: 2016-10-12
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.75 Å
- R-Value Free: 0.275 (Depositor), 0.280 (DCC)
- R-Value Work: 0.247 (Depositor), 0.250 (DCC)
- R-Value Observed: 0.249 (Depositor)
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.2 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Linear gramicidin synthase subunit A | A [auth C], B [auth A], C [auth B], D | 587 | Brevibacillus parabrevis | Mutation(s): 0 Gene Names: lgrA |  |
UniProt | |||||
Find proteins for Q70LM7 (Brevibacillus parabrevis) Explore Q70LM7 Go to UniProtKB: Q70LM7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q70LM7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FMT Query on FMT | E [auth C], F [auth C], G [auth C], H [auth C], I [auth A] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.75 Å
- R-Value Free: 0.275 (Depositor), 0.280 (DCC)
- R-Value Work: 0.247 (Depositor), 0.250 (DCC)
- R-Value Observed: 0.249 (Depositor)
Space Group: P 41
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 161.311 | α = 90 |
| b = 161.311 | β = 90 |
| c = 139.88 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| iMOSFLM | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2016-10-12 Deposition Author(s): Reimer, J.M., Aloise, M.N., Schmeing, T.M.
Revision History (Full details and data files)
- Version 1.0: 2016-10-12
Type: Initial release - Version 1.1: 2017-09-27
Changes: Author supporting evidence, Derived calculations - Version 1.2: 2023-09-27
Changes: Data collection, Database references, Refinement description
