Protein profile

KP13_00593

Rhamnulose-1-phosphate aldolase

Genome: KpKP13

Gene: rhaD AHE47068.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GK62
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Amino acids 276
Annotations 6
Features 14
PDB binders 1
Druggability 0.587

Overview

Basic information about this protein and its source genome.

Accession
KP13_00593
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
rhaD AHE47068.1
Status
annotated
Amino acids
276
Structure source
AlphaFold + ColabFold
EC
4.1.2.19
GO
GO:0008994 Catalysis of the reaction: L-rhamnulose 1-phosphate = glycerone phosphate + (S)-lactaldehyde. GO:0019301 The chemical reactions and pathways resulting in the breakdown of rhamnose, the hexose 6-deoxy-L-mannose. GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0046872 Binding to a metal ion. GO:0019323 The chemical reactions and pathways resulting in the breakdown of a pentose, any monosaccharide with a chain of five carbon atoms in the molecule.

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 (%)
86.861
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
98.05

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 0.587
Structure A0A0H3GK62
Pocket Pocket 13
P2Rank 0.349
Structure A0A0H3GK62
Pocket Pocket 1
ColabFold model
FPocket 0.6 · Pocket 1
P2Rank 0.491 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 156 / 4744 genomes with a hit
Normalized 0.033

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0008994 Catalysis of the reaction: L-rhamnulose 1-phosphate = glycerone phosphate + (S)-lactaldehyde.
  • GO:0019301 The chemical reactions and pathways resulting in the breakdown of rhamnose, the hexose 6-deoxy-L-mannose.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0046872 Binding to a metal ion.
  • GO:0019323 The chemical reactions and pathways resulting in the breakdown of a pentose, any monosaccharide with a chain of five carbon atoms in the molecule.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
1 271 SUPERFAMILY SSF53639 AraD/HMP-PK domain-like
1 271 InterPro IPR036409 Class II aldolase/adducin N-terminal domain superfamily
7 264 CDD cd00398 Aldolase_II
11 239 SMART SM01007 Aldolase_II_2
11 239 InterPro IPR001303 Class II aldolase/adducin N-terminal
1 274 FunFam G3DSA:3.40.225.10:FF:000006 Rhamnulose-1-phosphate aldolase
12 238 Pfam PF00596 Class II Aldolase and Adducin N-terminal domain
12 238 InterPro IPR001303 Class II aldolase/adducin N-terminal
1 272 NCBIfam TIGR02624 rhamnulose-1-phosphate aldolase
1 272 InterPro IPR013447 Rhamnulose-1-phosphate aldolase
1 272 Hamap MF_00770 Rhamnulose-1-phosphate aldolase [rhaD].
1 274 Gene3D G3DSA:3.40.225.10 -
1 274 InterPro IPR036409 Class II aldolase/adducin N-terminal domain superfamily
7 266 PANTHER PTHR22789 FUCULOSE PHOSPHATE ALDOLASE

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_A0A0H3GK62
AlphaFold — — full sequence — Viewing
ColabFold KP13_00593
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
13 0.587
1 0.131
3 0.004
10 0.002

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 7.82 0.349
2 3.78 0.118
3 1.79 0.028
4 1.08 0.006

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.

1 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
PGH
1GT7
P32169 171.0 Da LogP -1.40 TPSA 116.1 ✓ Ro5 ✓ Clean C(C(=O)NO)OP(=O)(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.