3R6C
Anthranilate phosphoribosyltransferase (trpD) from Mycobacterium tuberculosis (complex with inhibitor ACS179)
- PDB DOI: https://doi.org/10.2210/pdb3R6C/pdb
- Classification: Transferase/transferase inhibitor
- Organism(s): Mycobacterium tuberculosis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No 
- Deposited: 2011-03-21 Released: 2012-09-26 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.83 Å
- R-Value Free: 0.227 
- R-Value Work: 0.186 
- R-Value Observed: 0.188 
This is version 1.6 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Anthranilate phosphoribosyltransferase | 377 | Mycobacterium tuberculosis | Mutation(s): 0  Gene Names: MT2248, MTCY190.03c, trpD EC: 2.4.2.18 | ||
UniProt | |||||
Find proteins for P9WFX5 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WFX5  Go to UniProtKB:  P9WFX5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P9WFX5 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
PRP Query on PRP | C [auth A], H [auth B] | 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose C5 H13 O14 P3 PQGCEDQWHSBAJP-TXICZTDVSA-N | |||
17N Query on 17N | F [auth A], G [auth A], K [auth B] | 8-methoxyphenanthro[3,4-d][1,3]dioxole-5,6-dicarboxylic acid C18 H12 O7 KTEBZKXXNMHJFH-UHFFFAOYSA-N | |||
GOL Query on GOL | L [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
MG Query on MG | D [auth A], E [auth A], I [auth B], J [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.83 Å
- R-Value Free: 0.227 
- R-Value Work: 0.186 
- R-Value Observed: 0.188 
- Space Group: C 1 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 93.982 | α = 90 |
b = 77.93 | β = 110.18 |
c = 99.803 | γ = 90 |
Software Name | Purpose |
---|---|
SCALA | data scaling |
MOLREP | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
MAR345dtb | data collection |
DENZO | data reduction |
SCALEPACK | data scaling |
Entry History 
Deposition Data
- Released Date: 2012-09-26  Deposition Author(s): Castell, A., Short, F.L., Lott, J.S., TB Structural Genomics Consortium (TBSGC)
Revision History (Full details and data files)
- Version 1.0: 2012-09-26
Type: Initial release - Version 1.1: 2013-02-20
Changes: Database references - Version 1.2: 2013-04-10
Changes: Database references - Version 1.3: 2013-11-27
Changes: Database references - Version 1.4: 2017-11-08
Changes: Refinement description - Version 1.5: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.6: 2024-02-21
Changes: Data collection, Database references, Structure summary