Protein profile

KP13_01076

D-galactarate dehydratase

Genome: KpKP13

Gene: AHE42531.1 garD Structure source: AlphaFold + ColabFold UniProt A0A0H3H3E1
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Amino acids 523
Annotations 3
Features 15
PDB binders 1
Druggability 0.83

Overview

Basic information about this protein and its source genome.

Accession
KP13_01076
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42531.1 garD
Status
annotated
Amino acids
523
Structure source
AlphaFold + ColabFold
GO
GO:0016829 Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring. GO:0008867 Catalysis of the reaction: galactarate = 5-dehydro-4-deoxy-D-glucarate + H2O. GO:0046392 The chemical reactions and pathways resulting in the breakdown of D-galactarate, the anion of galactaric acid.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
92.925
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
93.07

Selected Druggability evidence

AlphaFold / UniProt model

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.83
Structure A0A0H3H3E1
Pocket Pocket 3
P2Rank 0.445
Structure A0A0H3H3E1
Pocket Pocket 1
ColabFold model
FPocket 0.716 · Pocket 29
P2Rank 0.533 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 170 / 4744 genomes with a hit
Normalized 0.036

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0016829 Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
  • GO:0008867 Catalysis of the reaction: galactarate = 5-dehydro-4-deoxy-D-glucarate + H2O.
  • GO:0046392 The chemical reactions and pathways resulting in the breakdown of D-galactarate, the anion of galactaric acid.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
119 520 Pfam PF04295 D-galactarate dehydratase / Altronate hydrolase, C terminus
119 520 InterPro IPR007392 D-galactarate/Altronate dehydratase, C-terminal
15 523 NCBIfam TIGR03248 galactarate dehydratase
15 523 InterPro IPR017654 Galactarate dehydratase GarD-like
14 91 Gene3D G3DSA:2.30.130.110 -
22 91 Pfam PF08666 SAF domain
22 91 InterPro IPR013974 SAF domain
15 86 CDD cd11613 SAF_AH_GD
15 86 InterPro IPR044144 UxaA/GarD, SAF domain
14 91 FunFam G3DSA:2.30.130.110:FF:000001 Galactarate dehydratase (L-threo-forming)
22 92 SMART SM00858 SAF_3
22 92 InterPro IPR013974 SAF domain
2 523 Hamap MF_02031 Galactarate dehydratase (L-threo-forming) [garD].
2 523 InterPro IPR032893 Galactarate dehydratase (L-threo-forming) GarD, Enterobacteriaceae
14 522 PANTHER PTHR30536 ALTRONATE/GALACTARATE DEHYDRATASE

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 2

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3H3E1
AlphaFold — — full sequence — Viewing
ColabFold KP13_01076
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
3 0.83
23 0.335
1 0.237

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 3.1 0.104
2 2.06 0.046
3 1.79 0.033
4 1.67 0.028
5 1.51 0.022

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

2 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
MLA
3K3S
A0A0H2VY20 104.1 Da LogP -0.45 TPSA 74.6 ✓ Ro5 ✓ Clean C(C(=O)O)C(=O)O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.