Download MendeleyCrystal structure of ethanolamine ammonia-lyase heavy chain (YP_013784.1) from Listeria monocytogenes 4b F2365 at 2.15 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2QEZ | pdb_00002qez
Crystal structure of ethanolamine ammonia-lyase heavy chain (YP_013784.1) from Listeria monocytogenes 4b F2365 at 2.15 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2QEZ/pdb
- Classification: LYASE
- Organism(s): Listeria monocytogenes serotype 4b str. F2365
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-06-26 Released: 2007-07-10
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.279 (Depositor), 0.290 (DCC)
- R-Value Work: 0.228 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.230 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.6 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 |
| Ethanolamine ammonia-lyase heavy chain | 455 | Listeria monocytogenes serotype 4b str. F2365 | Mutation(s): 0 Gene Names: YP_013784.1, eutB, LMOf2365_1185 EC: 4.3.1.7 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | G [auth A] H [auth A] I [auth C] J [auth D] K [auth D] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D, E A, B, C, D, E, F | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.279 (Depositor), 0.290 (DCC)
- R-Value Work: 0.228 (Depositor), 0.240 (DCC)
- R-Value Observed: 0.230 (Depositor)
Diffraction Data: https://doi.org/10.18430/M32QEZ
Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 188.33 | α = 90 |
| b = 223.7 | β = 90 |
| c = 65.93 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| XDS | data reduction |
| SHELXD | phasing |
| SHARP | phasing |
Entry History
Deposition Data
- Released Date: 2007-07-10 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-07-10
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Derived calculations, Source and taxonomy, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.5: 2023-01-25
Changes: Database references, Derived calculations - Version 1.6: 2024-11-06
Changes: Data collection, Refinement description, Structure summary
