Protein target profile

KP13_03037

Molybdenum cofactor biosynthesis protein A

Genome: KpKP13 Gene: moaA AHE45577.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GKA8
Length 329
Pocket druggability 0.991
Direct ligand evidence 0 54 total records
Functional annotation 1 EC 10 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
Hit
Human identity (%)
42.697 Lower values reduce human off-target concern.
Human E-value
2.54e-44
Gut microbiome similarity
3.2% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
46.154 Higher values support similarity to known essential genes.
DEG E-value
1.39e-102 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
92.83 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.991
Structure A0A0H3GKA8
Pocket Pocket 1
P2Rank 0.984
Structure A0A0H3GKA8
Pocket Pocket 1
ColabFold model
FPocket 0.995 · Pocket 1
P2Rank 0.988 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 152 / 4744 genomes with a hit
Prevalence 3.2%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MASQLTDAFARKFYYLRLSITDVCNFRCTYCLPNGYKPGAVNNNGFLSVDEVRRVTRAFSALGTEKVRLTGGEPSLRRDFTEIIAAVRENPAIRQIAVTTNGYRLARDVERWRDAGLTAINVSVDSLDARQFHAITGQDKFHQVMDGIDAAFAAGFDKVKVNTVLMRDVNHHQLDTFLAWIQPRRIQLRFIELMETGEGSDLFRRHHLSGMVLRDELLRRGWIHQIRQRSDGPAQVFCHPDYAGEIGLIMPYEKDFCATCNRLRVSSVGKLHLCLFGEGGVDLRDLMAEDQQQAALEARIAEALTHKKQTHFLHQGNTGITQNLSYIGG

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 10 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

10
  • GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0046872 Binding to a metal ion.
  • GO:0019008 OBSOLETE. A protein complex that possesses molybdopterin synthase activity. In E. coli, the complex is a heterotetramer consisting of two MoaD and two MoaE subunits.
  • 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.
  • GO:0051536 Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms.
  • GO:0006777 The chemical reactions and pathways resulting in the formation of the Mo-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofactor consists of a mononuclear molybdenum (Mo) ion coordinated by one or two molybdopterin ligands.
  • GO:0061799 Catalysis of the reaction: (8S)-3',8-cyclo-7,8-dihydroguanosine 5'-triphosphate = cyclic pyranopterin phosphate + diphosphate.
  • GO:0061798 Catalysis of the reaction: GTP=(8S)-3',8-cyclo-7,8-dihydroguanosine 5'-triphosphate.
  • GO:0005525 Binding to GTP, guanosine triphosphate.
  • GO:1904047 Binding to S-adenosyl-L-methionine.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
1 329 Gene3D G3DSA:3.20.20.70 Aldolase class I
1 329 InterPro IPR013785 Aldolase-type TIM barrel
252 321 CDD cd21117 Twitch_MoaA
252 321 InterPro IPR010505 Molybdenum cofactor biosynthesis protein A-like, twitch domain
5 281 SUPERFAMILY SSF102114 Radical SAM enzymes
23 125 Pfam PF13353 4Fe-4S single cluster domain
19 181 Pfam PF04055 Radical SAM superfamily
19 181 InterPro IPR007197 Radical SAM
20 31 ProSitePatterns PS01305 moaA / nifB / pqqE family signature.
20 31 InterPro IPR000385 MoaA/NifB/PqqE, iron-sulphur binding, conserved site
186 312 Pfam PF06463 Molybdenum Cofactor Synthesis C
186 312 InterPro IPR010505 Molybdenum cofactor biosynthesis protein A-like, twitch domain
3 312 PANTHER PTHR22960 MOLYBDOPTERIN COFACTOR SYNTHESIS PROTEIN A
5 329 Hamap MF_01225_B GTP 3',8-cyclase [moaA].
5 329 InterPro IPR013483 Molybdenum cofactor biosynthesis protein A
14 222 SMART SM00729 MiaB
14 222 InterPro IPR006638 Elp3/MiaA/NifB-like, radical SAM core domain
1 329 FunFam G3DSA:3.20.20.70:FF:000057 GTP 3',8-cyclase
2 329 SFLD SFLDG01383 cyclic pyranopterin phosphate synthase (MoaA-like)
18 198 CDD cd01335 Radical_SAM
5 329 NCBIfam TIGR02666 GTP 3',8-cyclase MoaA
8 234 ProSiteProfiles PS51918 Radical SAM core domain profile.
8 234 InterPro IPR007197 Radical SAM
2 329 SFLD SFLDG01386 main SPASM domain-containing

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.

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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 · FPocket

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

Site 1 FPocket #1
0.991
Likely same site as P2Rank 3 7.5 Å 13 shared residues 100% of smaller site
Unusual size
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Surrounding area
Site 2 FPocket #3
0.726
Likely same site as P2Rank 1 7.2 Å 21 shared residues 95% of smaller site
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Surrounding area

Binding pockets · P2Rank

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Site 1 P2Rank #1
0.984
Likely same site as FPocket 3 7.2 Å 21 shared residues 95% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.166
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Surrounding area
Site 3 P2Rank #3
0.114
Likely same site as FPocket 1 7.5 Å 13 shared residues 100% of smaller site
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Surrounding area
Site 4 P2Rank #4
0.05
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.006
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Surrounding area
Residue sets
UniProt: Binding site:123-123
UniProt: Binding site:160-160
UniProt: Binding site:17-17
UniProt: Binding site:194-194
UniProt: Binding site:24-24
UniProt: Binding site:257-257
UniProt: Binding site:260-260
UniProt: Binding site:262-264
UniProt: Binding site:274-274
UniProt: Binding site:28-28
UniProt: Binding site:30-30
UniProt: Binding site:31-31
UniProt: Binding site:68-68
UniProt: Binding site:72-72
UniProt: Binding site:99-99
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_A0A0H3GKA8
AlphaFold DB full sequence Viewing
ColabFold KP13_03037
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.

54 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 4 records from similar proteins
Structural ligands 4 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
5AD PDB via homolog 251.2 Da · LogP -0.95 · TPSA 119.3 Open detail RCSB PDB
B3P PDB via homolog Detail RCSB PDB
DTU PDB via homolog Detail RCSB PDB
POP PDB via homolog Detail RCSB PDB
ZINC100352250 ZINC proposed compound · Tanimoto 1.000 Detail ZINC

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
5AD RCSB PDB P69848 251.2 Da LogP -0.95 TPSA 119.3 ✓ Ro5 ✓ Clean C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O
B3P RCSB PDB Q8CBB9 282.3 Da LogP -4.01 TPSA 145.4 1 viol. ✓ Clean C(CNC(CO)(CO)CO)CNC(CO)(CO)CO
DTU RCSB PDB P65388 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@H]([C@H](CS)O)O)S
POP RCSB PDB P69848 176.0 Da LogP -2.08 TPSA 129.9 ✓ Ro5 ✓ Clean O[P@@](=O)([O-])O[P@@](=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.