Protein profile

KP13_01805

Undecaprenyl pyrophosphate synthase

Genome: KpKP13

Gene: uppS AHE46245.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GS37
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Amino acids 252
Annotations 9
Features 17
PDB binders 4
Druggability 0.863

Overview

Basic information about this protein and its source genome.

Accession
KP13_01805
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
uppS AHE46245.1
Status
annotated
Amino acids
252
Structure source
AlphaFold + ColabFold
EC
2.5.1.31
GO
GO:0016765 Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor). GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0008834 Catalysis of the reaction: (2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate = di-trans,octa-cis-undecaprenyl diphosphate + 8 diphosphate. GO:0000287 Binding to a magnesium (Mg) ion. GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. GO:0009252 The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
42.857
Human E-value
3.12e-10
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
88.095
DEG E-value
3.38e-168
Localization
Cytoplasmic
ColabFold pLDDT
92.72

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 0.863
Structure A0A0H3GS37
Pocket Pocket 1
P2Rank 0.958
Structure A0A0H3GS37
Pocket Pocket 1
ColabFold model
FPocket 0.762 · Pocket 1
P2Rank 0.956 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 371 / 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 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0016765 Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0008834 Catalysis of the reaction: (2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate = di-trans,octa-cis-undecaprenyl diphosphate + 8 diphosphate.
  • GO:0000287 Binding to a magnesium (Mg) ion.
  • GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
  • GO:0009252 The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.
  • GO:0016094 The chemical reactions and pathways resulting in the formation of polyprenols, prenols with more than 4 isoprenoid residues, which may be all-trans, or a mixture of cis and trans.
  • GO:0008360 Any process that modulates the surface configuration of a cell.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
23 243 Pfam PF01255 Putative undecaprenyl diphosphate synthase
23 243 InterPro IPR001441 Decaprenyl diphosphate synthase-like
5 245 FunFam G3DSA:3.40.1180.10:FF:000001 (2E,6E)-farnesyl-diphosphate-specific ditrans,polycis-undecaprenyl-diphosphate synthase
19 235 CDD cd00475 Cis_IPPS
19 235 InterPro IPR001441 Decaprenyl diphosphate synthase-like
189 206 ProSitePatterns PS01066 Undecaprenyl pyrophosphate synthase family signature.
189 206 InterPro IPR018520 Di-trans-poly-cis-decaprenylcistransferase-like, conserved site
16 243 PANTHER PTHR10291 DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE FAMILY MEMBER
16 243 InterPro IPR001441 Decaprenyl diphosphate synthase-like
18 243 NCBIfam TIGR00055 polyprenyl diphosphate synthase
18 243 InterPro IPR001441 Decaprenyl diphosphate synthase-like
18 239 SUPERFAMILY SSF64005 Undecaprenyl diphosphate synthase
18 239 InterPro IPR036424 Decaprenyl diphosphate synthase-like superfamily
2 245 Gene3D G3DSA:3.40.1180.10 -
2 245 InterPro IPR036424 Decaprenyl diphosphate synthase-like superfamily
16 244 Hamap MF_01139 Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) [uppS].
16 244 InterPro IPR001441 Decaprenyl diphosphate synthase-like

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_A0A0H3GS37
AlphaFold — — full sequence — Viewing
ColabFold KP13_01805
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
1 0.863

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 29.55 0.932
2 2.1 0.048
3 1.55 0.023

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.

71 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
53Q
7JLJ
O31751 406.0 Da LogP 6.56 TPSA 12.5 1 viol. ✓ Clean CCN(CC)CCOc1ccc(cc1)/C(=C(\c2ccccc2)/Cl)/c3cccc…
DPO
2DTN
P55984 173.9 Da LogP -3.34 TPSA 135.6 ✓ Ro5 ✓ Clean [O-]P(=O)([O-])OP(=O)([O-])[O-]
H78
3WYJ
P60472 948.7 Da LogP 3.71 TPSA 362.9 2 viol. ✓ Clean c1cc(cc(c1)c2cccc(c2)NS(=O)(=O)c3cccc(c3)S(=O)(…
V0D
7JLR
O31751 338.4 Da LogP 4.48 TPSA 33.4 ✓ Ro5 ✓ Clean CCc1cc(n2c(n1)c(cn2)c3ccc(cc3)F)N4CCCCCC4

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.