Download MendeleyCrystal structure of 16S rRNA methylase RmtF in complex with S-Adenosyl-L-homocysteine
Stogios, P.J.To be published.
6PI9
Crystal structure of 16S rRNA methyltransferase RmtF in complex with S-Adenosyl-L-homocysteine
- PDB DOI: https://doi.org/10.2210/pdb6PI9/pdb
- Classification: TRANSFERASE
- Organism(s): Klebsiella pneumoniae
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2019-06-26 Released: 2019-07-10
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.237
- R-Value Work: 0.192
- R-Value Observed: 0.194
This is version 1.3 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 |
| 16S rRNA (guanine(1405)-N(7))-methyltransferase | 260 | Klebsiella pneumoniae | Mutation(s): 0 Gene Names: rmtF, pN11x00042NDM_104 EC: 2.1.1.179 |  | |
UniProt | |||||
Find proteins for I1YZZ5 (Klebsiella pneumoniae) Explore I1YZZ5 Go to UniProtKB: I1YZZ5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | I1YZZ5 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SAH (Subject of Investigation/LOI) Query on SAH | B [auth A] | S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.237
- R-Value Work: 0.192
- R-Value Observed: 0.194
- Space Group: P 41 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 77.637 | α = 90 |
| b = 77.637 | β = 90 |
| c = 96.926 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| PHENIX | phasing |
| PHENIX | model building |
| Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-07-10 Deposition Author(s): Stogios, P.J., Kim, Y., Evdokimova, E., Di Leo, R., Semper, C., Savchenko, A., Satchell, K.J.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSN272201700060C |
Revision History (Full details and data files)
- Version 1.0: 2019-07-10
Type: Initial release - Version 1.1: 2019-08-21
Changes: Data collection, Structure summary - Version 1.2: 2019-12-18
Changes: Author supporting evidence - Version 1.3: 2023-10-11
Changes: Data collection, Database references, Refinement description
