Download MendeleyCrystal structure of a tRNA (guanine-N1)-methyltransferase from Anaplasma phagocytophilum bound to S-adenosylhomocysteine
Edwards, T.E., Clifton, M.C., Seattle Structural Genomics Center for Infectious Disease (SSGCID)To be published.
4IG6
Crystal structure of a tRNA (guanine-N1)-methyltransferase from Anaplasma phagocytophilum bound to S-adenosylhomocysteine
- PDB DOI: https://doi.org/10.2210/pdb4IG6/pdb
- Classification: TRANSFERASE/TRANSFERASE INHIBITOR
- Organism(s): Anaplasma phagocytophilum str. HZ
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-12-16 Released: 2012-12-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.204
- R-Value Work: 0.175
- R-Value Observed: 0.177
This is version 1.1 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 |
| tRNA (guanine-N(1)-)-methyltransferase | 253 | Anaplasma phagocytophilum str. HZ | Mutation(s): 0 Gene Names: APH_1267, trmD EC: 2.1.1.228 |  | |
UniProt | |||||
Find proteins for Q2GIL5 (Anaplasma phagocytophilum (strain HZ)) Explore Q2GIL5 Go to UniProtKB: Q2GIL5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q2GIL5 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SAH Query on SAH | B [auth A] | S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N |  | ||
| CL Query on CL | C [auth A], D [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.204
- R-Value Work: 0.175
- R-Value Observed: 0.177
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 105.11 | α = 90 |
| b = 105.11 | β = 90 |
| c = 92.25 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHASER | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| StructureStudio | data collection |
| XDS | data reduction |
Entry History
Deposition Data
- Released Date: 2012-12-26 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2012-12-26
Type: Initial release - Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description
