Download MendeleyCrystal structure of a Putative nitrate transport protein (TVN0104) from THERMOPLASMA VOLCANIUM at 1.35 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3MST | pdb_00003mst
Crystal structure of a Putative nitrate transport protein (TVN0104) from THERMOPLASMA VOLCANIUM at 1.35 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3MST/pdb
- Classification: TRANSPORT PROTEIN
- Organism(s): Thermoplasma volcanium
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2010-04-29 Released: 2011-02-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.35 Å
- R-Value Free: 0.155 (Depositor), 0.160 (DCC)
- R-Value Work: 0.119 (Depositor), 0.130 (DCC)
- R-Value Observed: 0.121 (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 |
| Putative nitrate transport protein | 244 | Thermoplasma volcanium | Mutation(s): 0 Gene Names: TV0103, TVG0108190 |  | |
UniProt | |||||
Find proteins for Q97CJ8 (Thermoplasma volcanium (strain ATCC 51530 / DSM 4299 / JCM 9571 / NBRC 15438 / GSS1)) Explore Q97CJ8 Go to UniProtKB: Q97CJ8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q97CJ8 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | I [auth A], J [auth A], K [auth A], L [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| ACT Query on ACT | H [auth A] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | ||
| CL Query on CL | C [auth A], D [auth A], E [auth A], F [auth A], G [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| UNL Query on UNL | B [auth A] | Unknown ligand 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: 1.35 Å
- R-Value Free: 0.155 (Depositor), 0.160 (DCC)
- R-Value Work: 0.119 (Depositor), 0.130 (DCC)
- R-Value Observed: 0.121 (Depositor)
Diffraction Data: https://doi.org/10.18430/M33MST
Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 35.042 | α = 90 |
| b = 80.04 | β = 104.67 |
| c = 42.522 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2011-02-09 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2011-02-09
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2013-03-13
Changes: Version format compliance - Version 1.3: 2017-10-25
Changes: Author supporting evidence, Refinement description - Version 1.4: 2019-07-17
Changes: Data collection, Derived calculations, Refinement description - Version 1.5: 2023-02-01
Changes: Database references, Derived calculations - Version 1.6: 2024-11-27
Changes: Data collection, Structure summary
