Download MendeleyCrystal structure of lactate dehydrogenase from Selenomonas ruminantium with NADH.
Bertrand, Q., Robin, A., Girard, E., Madern, D.To be published.
7NAY
Crystal structure of lactate dehydrogenase from Selenomonas ruminantium with NADH.
- PDB DOI: 10.2210/pdb7NAY/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Selenomonas ruminantium
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2021-01-25 Released: 2021-02-10
- Funding Organization(s): Agence Nationale de la Recherche (ANR)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.84 Å
- R-Value Free: 0.188
- R-Value Work: 0.145
- R-Value Observed: 0.149
This is version 1.0 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 |
| L-lactate dehydrogenase | A | 324 | Selenomonas ruminantium | Mutation(s): 0 Gene Names: ldh, ldhL EC: 1.1.1.27 |  |
UniProt | |||||
Find proteins for Q9EVR0 (Selenomonas ruminantium) Explore Q9EVR0 Go to UniProtKB: Q9EVR0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9EVR0 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 5 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAD Query on NAD | B [auth A] | NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N |  | Ligand Interaction | |
| 1PE Query on 1PE | J [auth A], L [auth A] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | Ligand Interaction | |
| MLA Query on MLA | C [auth A], D [auth A] | MALONIC ACID C3 H4 O4 OFOBLEOULBTSOW-UHFFFAOYSA-N |  | Ligand Interaction | |
| EDO Query on EDO | F [auth A], G [auth A], H [auth A], I [auth A], M [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| BO3 Query on BO3 | E [auth A], K [auth A] | BORIC ACID B H3 O3 KGBXLFKZBHKPEV-UHFFFAOYSA-N |  | Ligand Interaction | |
| Modified Residues 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| CSD Query on CSD | A | L-PEPTIDE LINKING | C3 H7 N O4 S |  | CYS |
| OCS Query on OCS | A | L-PEPTIDE LINKING | C3 H7 N O5 S |  | CYS |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.84 Å
- R-Value Free: 0.188
- R-Value Work: 0.145
- R-Value Observed: 0.149
- Space Group: I 2 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 62.75 | α = 90 |
| b = 104.26 | β = 90 |
| c = 110.94 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2021-02-10 Deposition Author(s): Bertrand, Q., Robin, A., Girard, E., Madern, D.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Agence Nationale de la Recherche (ANR) | France | -- |
Revision History (Full details and data files)
- Version 1.0: 2021-02-10
Type: Initial release
