Download MendeleyCrystal structure of the coiled coil and GGDEF domain of DgcB from Caulobacter crescentus in complex with c-di-GMP
Holzschuh, F., Schirmer, T., Teixeira, R.D.To be published.
6TTR
Crystal Structure of the coiled coil and GGDEF domain of DgcB from Caulobacter crescentus in complex with c-di-GMP
- PDB DOI: https://doi.org/10.2210/pdb6TTR/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Caulobacter vibrioides NA1000
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2019-12-30 Released: 2021-01-13
- Funding Organization(s): Swiss National Science Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.85 Å
- R-Value Free: 0.266
- R-Value Work: 0.217
- R-Value Observed: 0.219
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 |
| GGDEF diguanylate cyclase DgcB | 222 | Caulobacter vibrioides NA1000 | Mutation(s): 2 Gene Names: dgcB, CCNA_01926 |  | |
UniProt | |||||
Find proteins for A0A0H3CAN8 (Caulobacter vibrioides (strain NA1000 / CB15N)) Explore A0A0H3CAN8 Go to UniProtKB: A0A0H3CAN8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0H3CAN8 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| C2E Query on C2E | D [auth A], E [auth A], F [auth B] | 9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) C20 H24 N10 O14 P2 PKFDLKSEZWEFGL-MHARETSRSA-N |  | ||
| PO4 Query on PO4 | C [auth A], G [auth B] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.85 Å
- R-Value Free: 0.266
- R-Value Work: 0.217
- R-Value Observed: 0.219
- Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 88.084 | α = 90 |
| b = 148.745 | β = 90 |
| c = 60.401 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2021-01-13 Deposition Author(s): Holzschuh, F., Schirmer, T., Teixeira, R.D.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Swiss National Science Foundation | Switzerland | 31003A-166652 |
Revision History (Full details and data files)
- Version 1.0: 2021-01-13
Type: Initial release - Version 1.1: 2024-05-01
Changes: Data collection, Database references, Refinement description
