Protein profile

PA1502

glyoxylate carboligase

Genome: NC_002516.2

Gene: PA1502 gcl Structure source: AlphaFold UniProt Q9I3L0
Amino acids 591
Annotations 9
Features 22
PDB binders 16
Druggability 0.634

Overview

Basic information about this protein and its source genome.

Accession
PA1502
Gene
PA1502 gcl
Status
annotated
Amino acids
591
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
33.962
Human E-value
3.6e-06
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected Druggability evidence

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 0.634
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

9 GO

Gene Ontology (GO)

9
  • GO:0005948 A dimeric (a large and a small chain) or tetrameric (two large and two small chains) enzyme complex. Catalyzes the formation of acetolactate from pyruvate.
  • GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0000287 Binding to a magnesium (Mg) ion.
  • GO:0009028 Catalysis of the reaction: 2 glyoxylate + H+ = 2-hydroxy-3-oxopropanoate + CO2.
  • GO:0030976 Binding to thiamine pyrophosphate, the diphosphoric ester of thiamine. Acts as a coenzyme of several (de)carboxylases, transketolases, and alpha-oxoacid dehydrogenases.
  • GO:0009436 The chemical reactions and pathways resulting in the breakdown of glyoxylate, the anion of glyoxylic acid, HOC-COOH.
  • GO:0009097 OBSOLETE. The chemical reactions and pathways resulting in the formation of isoleucine, (2R*,3R*)-2-amino-3-methylpentanoic acid.
  • GO:0009099 The chemical reactions and pathways resulting in the formation of valine, 2-amino-3-methylbutanoic acid.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.

Sequence Features

Domain/signature hits from InterPro and related databases.

22 records
Show feature table
Start End DB Term Name
359 582 Gene3D G3DSA:3.40.50.970 -
193 358 Gene3D G3DSA:3.40.50.1220 -
1 187 FunFam G3DSA:3.40.50.970:FF:000007 Acetolactate synthase
5 172 Pfam PF02776 Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
5 172 InterPro IPR012001 Thiamine pyrophosphate enzyme, N-terminal TPP-binding domain
3 559 PANTHER PTHR18968 THIAMINE PYROPHOSPHATE ENZYMES
3 559 InterPro IPR045229 Thiamine pyrophosphate enzyme
393 553 Pfam PF02775 Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
393 553 InterPro IPR011766 Thiamine pyrophosphate enzyme, TPP-binding
194 328 Pfam PF00205 Thiamine pyrophosphate enzyme, central domain
194 328 InterPro IPR012000 Thiamine pyrophosphate enzyme, central domain
161 350 SUPERFAMILY SSF52467 DHS-like NAD/FAD-binding domain
161 350 InterPro IPR029035 DHS-like NAD/FAD-binding domain superfamily
8 163 CDD cd07035 TPP_PYR_POX_like
186 361 FunFam G3DSA:3.40.50.1220:FF:000008 Acetolactate synthase
1 185 Gene3D G3DSA:3.40.50.970 -
3 184 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding)
3 184 InterPro IPR029061 Thiamin diphosphate-binding fold
369 567 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding)
369 567 InterPro IPR029061 Thiamin diphosphate-binding fold
2 590 NCBIfam TIGR01504 glyoxylate carboligase
2 590 InterPro IPR006397 Glyoxylate carboligase

3D Structure

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

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Structural evidence

0 + 1

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA1502
AlphaFold full sequence Viewing
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
1 0.634
2 0.417

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.

103 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
1IQ P17597 311.3 Da LogP 2.22 TPSA 91.7 ✓ Ro5 ✓ Clean CC(C)[C@@]1(C(=O)NC(=N1)c2c(cc3ccccc3n2)C(=O)O)C
1MM P17597 381.4 Da LogP 0.49 TPSA 149.5 ✓ Ro5 ✓ Clean Cc1nc(nc(n1)OC)NC(=O)NS(=O)(=O)c2ccccc2C(=O)OC
1MS P17597 337.3 Da LogP 1.20 TPSA 144.2 ✓ Ro5 ✓ Clean Cc1ccnc(n1)NC(=O)NS(=O)(=O)c2ccccc2[N+](=O)[O-]
1SM P17597 364.4 Da LogP 1.39 TPSA 127.3 ✓ Ro5 ✓ Clean Cc1cc(nc(n1)NC(=O)NS(=O)(=O)c2ccccc2C(=O)OC)C
2SM P17597 350.4 Da LogP 1.08 TPSA 127.3 ✓ Ro5 ✓ Clean Cc1ccnc(n1)NC(=O)NS(=O)(=O)c2ccccc2C(=O)OC
6QL P17597 430.4 Da LogP 2.58 TPSA 144.2 1 viol. ✓ Clean COc1cc(nc(n1)Oc2cccc(c2C(=O)O)Oc3nc(cc(n3)OC)OC…
6R4 P17597 398.4 Da LogP 0.10 TPSA 138.6 ✓ Ro5 ✓ Clean CCCOC1=NN(C(=O)N1C)C(=O)NS(=O)(=O)c2ccccc2C(=O)…
6R5 P17597 390.4 Da LogP -0.31 TPSA 138.6 1 viol. ✓ Clean Cc1c(c(cs1)C(=O)OC)S(=O)(=O)NC(=O)N2C(=O)N(C(=N…
DTT P0AEP7 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
F50 P17597 76.1 Da LogP 0.02 TPSA 46.5 ✓ Ro5 ✓ Clean CC(=O)OO
FAB P17597 855.6 Da LogP -2.87 TPSA 373.8 3 viol. Alert Cc1cc2c(cc1C)[N+](=C3C(=O)NC(=O)N=C3N2C[C@@H]([…
P22 P17597 206.0 Da LogP 0.23 TPSA 113.3 ✓ Ro5 ✓ Clean CCO[P@](=O)(O)OP(=O)(O)O
PXD P17597 483.4 Da LogP 2.61 TPSA 116.9 ✓ Ro5 ✓ Clean COc1cnc(n2c1nc(n2)NS(=O)(=O)c3c(cccc3OCC(F)F)C(…
TDM P17597 468.4 Da LogP 2.51 TPSA 188.6 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)CN\2C(=C(S/C2=C(\C)/O)CCO[P@@](=O…
TP9 P17597 412.3 Da LogP -0.03 TPSA 182.8 1 viol. ✓ Clean Cc1ncc(c(n1)N)CN/C(=C(/CCO[P@](=O)([O-])O[P@@](…
TZD P17597 440.3 Da LogP 0.72 TPSA 187.1 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)CN2C(=C(SC2=O)CCO[P@@](=O)(O)OP(=…

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.