Download MendeleyCrystal structure of conserved hypothetical protein RBL00553 (ZP_00537729.1) from EXIGUOBACTERIUM SP. 255-15 at 1.70 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2HKV
CRYSTAL STRUCTURE OF A PUTATIVE MEMBER OF THE DINB FAMILY (EXIG_1237) FROM EXIGUOBACTERIUM SIBIRICUM 255-15 AT 1.70 A RESOLUTION
- PDB DOI: https://doi.org/10.2210/pdb2HKV/pdb
- Classification: DNA BINDING PROTEIN
- Organism(s): Exiguobacterium sibiricum 255-15
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2006-07-05 Released: 2006-08-15
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.227
- R-Value Work: 0.181
- R-Value Observed: 0.185
wwPDB Validation 3D Report Full Report
This is version 1.5 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 | 149 | Exiguobacterium sibiricum 255-15 | Mutation(s): 3 Gene Names: ZP_00537729.1 |  | |
UniProt | |||||
Find proteins for B1YEV7 (Exiguobacterium sibiricum (strain DSM 17290 / CIP 109462 / JCM 13490 / 255-15)) Explore B1YEV7 Go to UniProtKB: B1YEV7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | B1YEV7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NI Query on NI | B [auth A] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |  | ||
| CL Query on CL | C [auth A], D [auth A], E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.227
- R-Value Work: 0.181
- R-Value Observed: 0.185
- Space Group: P 32 2 1
- Diffraction Data: https://doi.org/10.18430/M32HKV
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 45.02 | α = 90 |
| b = 45.02 | β = 90 |
| c = 131.18 | γ = 120 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| REFMAC | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| SOLVE | phasing |
Entry History
Deposition Data
- Released Date: 2006-08-15 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2006-08-15
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance - Version 1.3: 2016-12-14
Changes: Other - Version 1.4: 2017-10-18
Changes: Refinement description - Version 1.5: 2023-01-25
Changes: Database references, Derived calculations
