KpKP13 Protein target profile

Dihydropteroate synthase type-2

Accession: KP13_01432

Gene: AHE47399.1 sulII 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GZK9
Length 271
Pocket druggability (P2Rank · AlphaFold DB model) 0.921
Direct ligand evidence 0 98 total records
Functional annotation 1 EC 8 GO
Target summary

Promising target candidate with multiple supporting evidence streams.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
No hit
Gut microbiome similarity
0.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
0.0 Higher values support similarity to known essential genes.

Structure confidence

ColabFold pLDDT
93.43 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

Druggability (P2Rank) 0.921
Structure A0A0H3GZK9
Pocket Pocket 1
Druggability (FPocket) 0.8
Structure A0A0H3GZK9
Pocket Pocket 1
ColabFold model
P2Rank 0.905 · Pocket 1
FPocket 0.536 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 19 / 4744 genomes with a hit
Prevalence 0.4%

Sequence

Primary amino-acid sequence viewer.

MNKSLIIFGIVNITSDSFSDGGRYLAPDAAIAQARKLMAEGADVIDLGPASSNPDAAPVSSDTEIARIAPVLDALKADGIPVSLDSYQPATQAYALSRGVAYLNDIRGFPDAAFYPQLAKSSAKLVVMHSVQDGQADRREAPAGDIMDHIAAFFDARIAALTGAGIKRNRLVLDPGMGFFLGAAPETSLSVLARFDELRLRFDLPVLLSVSRKSFLRALTGRGPGDVGAATLAAELAAAAGGADFIRTHEPRPLRDGLAVLAALKETARIR

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0042558 The chemical reactions and pathways involving any compound containing pteridine (pyrazino(2,3-dipyrimidine)), e.g. pteroic acid, xanthopterin and folic acid.
  • GO:0004156 Catalysis of the reaction: 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate + 4-aminobenzoate = diphosphate + dihydropteroate.
  • GO:0009396 The chemical reactions and pathways resulting in the formation of folic acid and its derivatives.
  • GO:0044237 OBSOLETE. The chemical reactions and pathways by which individual cells transform chemical substances.
  • 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:0046656 The chemical reactions and pathways resulting in the formation of folic acid, pteroylglutamic acid.
  • GO:0046654 The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin group.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
5 259 ProSiteProfiles PS50972 Pterin-binding domain profile.
5 259 InterPro IPR000489 Pterin-binding domain
7 262 CDD cd00739 DHPS
7 262 InterPro IPR006390 Dihydropteroate synthase domain
7 263 NCBIfam TIGR01496 dihydropteroate synthase
7 263 InterPro IPR006390 Dihydropteroate synthase domain
7 22 ProSitePatterns PS00792 Dihydropteroate synthase signature 1.
7 22 InterPro IPR000489 Pterin-binding domain
1 271 Gene3D G3DSA:3.20.20.20 -
1 271 InterPro IPR011005 Dihydropteroate synthase-like
8 249 Pfam PF00809 Pterin binding enzyme
8 249 InterPro IPR000489 Pterin-binding domain
3 266 SUPERFAMILY SSF51717 Dihydropteroate synthetase-like
3 266 InterPro IPR011005 Dihydropteroate synthase-like
41 54 ProSitePatterns PS00793 Dihydropteroate synthase signature 2.
41 54 InterPro IPR000489 Pterin-binding domain
6 266 PANTHER PTHR20941 FOLATE SYNTHESIS PROTEINS
6 266 InterPro IPR045031 Dihydropteroate synthase

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

Download VMD script Full viewer

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.921
Likely same site as FPocket 1 1.2 Å 29 shared residues 100% of smaller site
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.014
Show in viewer
Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #1
0.8 Unusual size
Likely same site as P2Rank 1 1.2 Å 29 shared residues 100% of smaller site
Show in viewer
Surrounding area
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold DB AF_A0A0H3GZK9
AlphaFold DB full sequence Viewing
ColabFold KP13_01432
ColabFold full sequence Loaded

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.

98 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 48 records from similar proteins
Structural ligands 22 0 loaded crystals
Measured bioactivity 26 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
08D PDB via homolog 253.3 Da · LogP 1.37 · TPSA 98.2 Open detail RCSB PDB
22D PDB via homolog Detail RCSB PDB
2PH PDB via homolog Detail RCSB PDB
5RU PDB via homolog Detail RCSB PDB
6GU PDB via homolog Detail RCSB PDB

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
08D RCSB PDB A0A2S9PLG4 253.3 Da LogP 1.37 TPSA 98.2 ✓ Ro5 ✓ Clean Cc1cc(no1)NS(=O)(=O)c2ccc(cc2)N
22D RCSB PDB D2UDM3 312.3 Da LogP 0.61 TPSA 146.9 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)O)NCc2cnc3c(n2)C(=O)NC(=N3)N
2PH RCSB PDB P0AC13 355.1 Da LogP -0.92 TPSA 209.4 1 viol. ✓ Clean C1C(=NC2=C(N1)N=C(NC2=O)N)CO[P@@](=O)(O)OP(=O)(…
5RU RCSB PDB P0AC13 291.3 Da LogP 1.66 TPSA 100.5 ✓ Ro5 ✓ Clean c1ccc(c(c1)CSc2[nH]c3c(n2)C(=O)NC(=N3)N)F
6GU RCSB PDB D2UDM3 169.6 Da LogP 0.59 TPSA 80.5 ✓ Ro5 ✓ Clean c1[nH]c2c(n1)c(nc(n2)N)Cl
6MB RCSB PDB A0A2S9PLG4 442.5 Da LogP 1.31 TPSA 181.8 ✓ Ro5 ✓ Clean Cc1c(noc1NS(=O)(=O)c2ccc(cc2)NCc3cnc4c(n3)C(=O)…
78H RCSB PDB B4E5F5 314.3 Da LogP 0.66 TPSA 145.5 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)O)NCC2=NC3=C(NC2)N=C(NC3=O)N
7PJ RCSB PDB P0AC13 241.2 Da LogP -0.59 TPSA 137.7 ✓ Ro5 ✓ Clean C(C(=O)O)Sc1[nH]c2c(n1)C(=O)NC(=N2)N
7PM RCSB PDB P0AC13 317.3 Da LogP 1.15 TPSA 137.7 ✓ Ro5 ✓ Clean c1ccc(cc1)[C@H](C(=O)O)Sc2[nH]c3c(n2)C(=O)NC(=N…
7PS RCSB PDB P0AC13 254.3 Da LogP -0.93 TPSA 129.5 ✓ Ro5 ✓ Clean CNC(=O)CSc1[nH]c2c(n1)C(=O)NC(=N2)N
7PV RCSB PDB P0AC13 366.4 Da LogP 0.21 TPSA 160.6 ✓ Ro5 ✓ Clean c1cc(ccc1CCSc2[nH]c3c(n2)C(=O)NC(=N3)N)S(=O)(=O…
7VJ RCSB PDB P0AC13 169.1 Da LogP -0.21 TPSA 113.2 ✓ Ro5 ✓ Clean CNC1=C(C(=O)NC(=N1)N)N=O
8Y4 RCSB PDB P0AC13 330.4 Da LogP 0.97 TPSA 118.7 ✓ Ro5 ✓ Clean Cn1c2c(nc1SCC(=O)Nc3ccccc3)C(=O)NC(=N2)N
8Y7 RCSB PDB P0AC13 255.3 Da LogP -0.58 TPSA 126.9 ✓ Ro5 ✓ Clean Cn1c2c(nc1SCC(=O)O)C(=O)NC(=N2)N
9MG RCSB PDB P0AC13 165.2 Da LogP -0.35 TPSA 89.8 ✓ Ro5 ✓ Clean Cn1cnc2c1nc(nc2O)N
HH2 RCSB PDB Q5SLV2 353.1 Da LogP -0.98 TPSA 210.8 ✓ Ro5 ✓ Clean c1c(nc2c(n1)N=C(NC2=O)N)CO[P@](=O)(O)OP(=O)(O)O
ICB RCSB PDB D2UDM3 161.2 Da LogP 1.87 TPSA 53.1 ✓ Ro5 ✓ Clean c1ccc2c(c1)cc([nH]2)C(=O)O
PAB RCSB PDB A0A2S9PLG4 137.1 Da LogP 0.97 TPSA 63.3 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)O)N
PH2 RCSB PDB P0AC13 195.2 Da LogP -1.16 TPSA 116.4 ✓ Ro5 ✓ Clean C1C(=NC2=C(N1)N=C(NC2=O)N)CO
POP RCSB PDB A0A2S9PLG4 176.0 Da LogP -2.08 TPSA 129.9 ✓ Ro5 ✓ Clean O[P@@](=O)([O-])O[P@@](=O)(O)[O-]
XHP RCSB PDB A0A2S9PLG4 177.2 Da LogP -1.88 TPSA 96.5 ✓ Ro5 ✓ Clean C=C1CN=C2C(=N1)C(=O)NC(=N2)N
YH5 RCSB PDB P0AC13 331.4 Da LogP 1.21 TPSA 126.8 ✓ Ro5 ✓ Clean COc1ccc(cc1)C(=O)CSc2[nH]c3c(n2)C(=O)NC(=N3)N

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.

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.