Download MendeleyCrystal structure of SusD superfamily protein (YP_001299712.1) from Bacteroides vulgatus ATCC 8482 at 1.13 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3JQ0 | pdb_00003jq0
3JQ0 | pdb_00003jq0
Crystal structure of SusD superfamily protein (YP_001299712.1) from Bacteroides vulgatus ATCC 8482 at 1.13 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3JQ0/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Phocaeicola vulgatus ATCC 8482
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-09-04 Released: 2009-09-22
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.13 Å
- R-Value Free: 0.137 (Depositor), 0.168 (DCC)
- R-Value Work: 0.117 (Depositor), 0.156 (DCC)
- R-Value Observed: 0.118 (Depositor)
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:
| 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| SusD superfamily protein | 493 | Phocaeicola vulgatus ATCC 8482 | Mutation(s): 0 Gene Names: BVU_2431, YP_001299712.1 |  | |
UniProt | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A6L326 | ||||
Sequence AnnotationsExpand | |||||
Reference Sequence | |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| TRS Download:Ideal Coordinates CCD File | B [auth A] | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O |  | ||
| SO4 Download:Ideal Coordinates CCD File | G [auth A], H [auth A], I [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Download:Ideal Coordinates CCD File | C [auth A], D [auth A], E [auth A], F [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| CL Download:Ideal Coordinates CCD File | J [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: 1.13 Å
- R-Value Free: 0.137 (Depositor), 0.168 (DCC)
- R-Value Work: 0.117 (Depositor), 0.156 (DCC)
- R-Value Observed: 0.118 (Depositor)
Diffraction Data:
Space Group: P 65 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.804 | α = 90 |
| b = 75.804 | β = 90 |
| c = 323.966 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SOLVE | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
Entry History
Deposition Data
- Released Date: 2009-09-22 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2009-09-22
Type: Initial release - Version 1.1: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-06
Changes: Data collection, Structure summary
