Protein profile

KP13_01924

3-isopropylmalate dehydratase small subunit

Genome: KpKP13

Gene: leuD AHE46365.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GI53
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Amino acids 201
Annotations 5
Features 13
PDB binders 0
Druggability 0.335

Overview

Basic information about this protein and its source genome.

Accession
KP13_01924
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
leuD AHE46365.1
Status
annotated
Amino acids
201
Structure source
AlphaFold + ColabFold
EC
4.2.1.33
GO
GO:0003861 Catalysis of the reaction: (2R,3S)-3-isopropylmalate = (2S)-2-isopropylmalate. GO:0009316 A heterodimeric enzyme complex composed of subunits leuC and leuD. Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. GO:0009098 The chemical reactions and pathways resulting in the formation of L-leucine, 2-amino-4-methylpentanoic acid. GO:0016853 Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.

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 (%)
70.918
DEG E-value
8.11e-109
Localization
Cytoplasmic
ColabFold pLDDT
91.59

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 0.335
Structure A0A0H3GI53
Pocket Pocket 5
P2Rank 0.03
Structure A0A0H3GI53
Pocket Pocket 1
ColabFold model
FPocket 0.438 · Pocket 3
P2Rank 0.012 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 370 / 4744 genomes with a hit
Normalized 0.078

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0003861 Catalysis of the reaction: (2R,3S)-3-isopropylmalate = (2S)-2-isopropylmalate.
  • GO:0009316 A heterodimeric enzyme complex composed of subunits leuC and leuD. Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate.
  • GO:0009098 The chemical reactions and pathways resulting in the formation of L-leucine, 2-amino-4-methylpentanoic acid.
  • GO:0016853 Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.

Sequence Features

Domain/signature hits from InterPro and related databases.

13 records
Show feature table
Start End DB Term Name
2 200 Hamap MF_01031 3-isopropylmalate dehydratase small subunit [leuD].
2 200 InterPro IPR004431 3-isopropylmalate dehydratase, small subunit
1 181 FunFam G3DSA:3.20.19.10:FF:000003 3-isopropylmalate dehydratase small subunit
3 189 NCBIfam TIGR00171 3-isopropylmalate dehydratase small subunit
3 189 InterPro IPR004431 3-isopropylmalate dehydratase, small subunit
15 148 CDD cd01577 IPMI_Swivel
15 148 InterPro IPR033940 3-isopropylmalate dehydratase, swivel domain
1 181 Gene3D G3DSA:3.20.19.10 Aconitase, domain 4
1 181 InterPro IPR015928 Aconitase/3-isopropylmalate dehydratase, swivel
3 196 SUPERFAMILY SSF52016 LeuD/IlvD-like
1 198 PANTHER PTHR43345 3-ISOPROPYLMALATE DEHYDRATASE SMALL SUBUNIT 2-RELATED-RELATED
3 126 Pfam PF00694 Aconitase C-terminal domain
3 126 InterPro IPR000573 Aconitase A/isopropylmalate dehydratase small subunit, swivel domain

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_A0A0H3GI53
AlphaFold — — full sequence — Viewing
ColabFold KP13_01924
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
5 0.335

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 1.27 0.013
2 0.81 0.003