Download MendeleyCrystal structure of hypothetical protein (np_356412.1) from Agrobacterium tumefaciens at 1.50 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
1VQS | pdb_00001vqs
Crystal structure of a nipsnap family protein with unknown function (atu4242) from agrobacterium tumefaciens str. c58 at 1.50 A resolution
- PDB DOI: https://doi.org/10.2210/pdb1VQS/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Agrobacterium fabrum str. C58
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2004-12-20 Released: 2005-01-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.177 (Depositor), 0.190 (DCC)
- R-Value Work: 0.151 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.152 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.4 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 |
| hypothetical protein AGR_L_1239 | 116 | Agrobacterium fabrum str. C58 | Mutation(s): 4 Gene Names: np_356412.1 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MPD Query on MPD | H [auth B], J [auth C] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N |  | ||
| SO4 Query on SO4 | F [auth A], G [auth B], I [auth C], K [auth D], L [auth E] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D, E | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.177 (Depositor), 0.190 (DCC)
- R-Value Work: 0.151 (Depositor), 0.170 (DCC)
- R-Value Observed: 0.152 (Depositor)
Diffraction Data: https://doi.org/10.18430/M31VQS
Space Group: I 4 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 94.792 | α = 90 |
| b = 94.792 | β = 90 |
| c = 303.133 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MOSFLM | data reduction |
| SCALA | data scaling |
| SOLVE | phasing |
| REFMAC | refinement |
| CCP4 | data scaling |
Entry History
Deposition Data
- Released Date: 2005-01-11 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2005-01-11
Type: Initial release - Version 1.1: 2008-04-27
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Version format compliance - Version 1.3: 2023-01-25
Changes: Database references, Derived calculations - Version 1.4: 2024-10-16
Changes: Data collection, Structure summary
