Download MendeleyCrystal structure of a lipoprotein, YaeC family (EF3198) from Enterococcus faecalis V583 at 1.80 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
4NTL
Crystal structure of a lipoprotein, YaeC family (EF3198) from Enterococcus faecalis V583 at 1.80 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4NTL/pdb
- Classification: TRANSPORT PROTEIN
- Organism(s): Enterococcus faecalis V583
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-12-02 Released: 2013-12-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.213
- R-Value Work: 0.179
- R-Value Observed: 0.181
wwPDB Validation 3D Report Full Report
This is version 1.3 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 |
| Lipoprotein, YaeC family | A | 247 | Enterococcus faecalis V583 | Mutation(s): 0 Gene Names: EF_3198, I574_00285, NP_816800.1, OO5_00380 |  |
UniProt | |||||
Find proteins for Q82Z74 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q82Z74 Go to UniProtKB: Q82Z74 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q82Z74 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ZN Query on ZN | B [auth A], C [auth A], D [auth A], E [auth A], F [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | Ligand Interaction | |
| EDO Query on EDO | G [auth A], H [auth A], I [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| ACT Query on ACT | J [auth A], K [auth A] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | Ligand Interaction | |
| NA Query on NA | L [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | Ligand Interaction | |
| 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: 1.80 Å
- R-Value Free: 0.213
- R-Value Work: 0.179
- R-Value Observed: 0.181
- Space Group: I 4 2 2
- Diffraction Data: https://doi.org/10.18430/M34NTL
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 97.161 | α = 90 |
| b = 97.161 | β = 90 |
| c = 144.686 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| PDB_EXTRACT | data extraction |
| SHELX | phasing |
| SHARP | phasing |
| SCALA | data scaling |
| REFMAC | refinement |
| MOSFLM | data reduction |
| SHELXD | phasing |
Entry History
Deposition Data
- Released Date: 2013-12-11 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2013-12-11
Type: Initial release - Version 1.1: 2017-11-22
Changes: Refinement description - Version 1.2: 2018-01-24
Changes: Database references - Version 1.3: 2023-02-01
Changes: Database references, Derived calculations
