Download MendeleyCrystal structure of a putative Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase from Methanocaldococcus jannaschii DSM 2661
Nocek, B., Hatzos, C., Clancy, S., Joachimiak, A.To be published.
3L0Z
Crystal structure of a putative Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase from Methanocaldococcus jannaschii DSM 2661
- PDB DOI: https://doi.org/10.2210/pdb3L0Z/pdb
- Classification: TRANSFERASE
- Organism(s): Methanocaldococcus jannaschii DSM 2661
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2009-12-10 Released: 2010-01-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.65 Å
- R-Value Free: 0.262
- R-Value Work: 0.202
- R-Value Observed: 0.205
wwPDB Validation 3D Report Full Report
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 |
| putative Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase | 350 | Methanocaldococcus jannaschii DSM 2661 | Mutation(s): 0 Gene Names: MJ1598 |  | |
UniProt | |||||
Find proteins for Q58993 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q58993 Go to UniProtKB: Q58993 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q58993 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PO4 Query on PO4 | D [auth A] E [auth A] F [auth B] G [auth B] H [auth B] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.65 Å
- R-Value Free: 0.262
- R-Value Work: 0.202
- R-Value Observed: 0.205
- Space Group: P 31 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 119.305 | α = 90 |
| b = 119.305 | β = 90 |
| c = 170.105 | γ = 120 |
| Software Name | Purpose |
|---|---|
| SBC-Collect | data collection |
| HKL-3000 | phasing |
| DM | model building |
| SHELX | model building |
| MLPHARE | phasing |
| Coot | model building |
| RESOLVE | model building |
| REFMAC | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| DM | phasing |
| SHELX | phasing |
| RESOLVE | phasing |
Entry History
Deposition Data
- Released Date: 2010-01-26 Deposition Author(s): Nocek, B., Hatzos, C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2010-01-26
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Refinement description, Version format compliance
