KpATCC43816 Protein target profile

type VI secretion ATPase, ClpV1 family

Accession: VK055_1100

Gene: AIK79723.1 clpV 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GSF4
Length 866
Pocket druggability (P2Rank · AlphaFold DB model) 0.636
Direct ligand evidence 0 56 total records
Functional annotation 0 EC 6 GO
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

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 (%)
35.345 Lower values reduce human off-target concern.
Human E-value
4.68e-39
Gut microbiome similarity
1.3% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
52.632 Higher values support similarity to known essential genes.
DEG E-value
7.44e-74 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
83.84 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) 0.636
Structure A0A0H3GSF4
Pocket Pocket 1
Druggability (FPocket) 0.394
Structure A0A0H3GSF4
Pocket Pocket 15
ColabFold model
P2Rank 0.648 · Pocket 1
FPocket 0.814 · Pocket 35
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 60 / 4744 genomes with a hit
Prevalence 1.3%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

This protein is not associated with the imported metabolic network for this genome.

Browse the genome's metabolic network

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MEGAASLCQTRAHAEILPEHWLLKLLEQGEGDLTVLARRYEWDMDALWQDLLSWLDKQPRSVRHRPQLSHHTLRLMQEAWLIASLSGEAQIRSVHLLMALVEKQNLIQCDGLWPLLTLGQRQLERLRPLLDAQSDERPPAQQEAALAQPHGGDVEFVGRPAGSELNADGLNPALQNALDKFTLDVTAKARDGQIDPVFGRDTEIRQMVDILSRRRKNNPILVGEPGVGKTALVEGLALRIAEGNVPDALKPVSVRTLDLGLLQAGAGVKGEFEQRLKNIIEAVQQSPSPVLLFIDEAHTIIGAGNQAGGADAANLLKPALARGELRTIAATTWSEYKQYFERDAALERRFQMVKVDEPDDDTACLMLRGLKSRYADHHGVHITDDAVRAAVTLSRRYLTGRQLPDKAVDLLDTASARLRMSLDTVPQPLTRMKAQLTALAMEKQALLEDIALGNSARGDRLAAIEQEEIRLILALDTLETQYGQELQLTEALLACRRDISRQAEISDLQTALIAVQQGNPLLGLDVDVRTVATVIADWTGVPLSSLMKDEQTELLSLEESLGKRVVGQEAALSAIARRLRAAKTGLTPENGPQGVFLLVGPSGTGKTETALALADALFGGEKALITINLSEYQEPHTVSQLKGSPPGYVGYGQGGILTEAVRKRPYSVVLLDEVEKAHRDVMNLFYQVFDRGVMRDGEGREIDFRNTVILMTANLGSDLLMQLLDEQPQASESDLHELLRPVLRGHFQPALLARFQTVIYRPLPAGALRAIVGMKLGQVSQRLACHYGITTTLSESLFDALTEACLLPDTGARNVDSLLNQQILPALSQQLLSHMAAGQKPRQVTLGYHEEEGVVMAFDEGTISDE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

6
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0008233 Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
  • GO:0034605 Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
  • GO:0006508 The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

51 records
Show feature table
Start End DB Term Name
311 323 ProSitePatterns PS00870 Chaperonins clpA/B signature 1.
311 323 InterPro IPR018368 ClpA/B, conserved site 1
176 500 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
176 500 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
545 761 FunFam G3DSA:3.40.50.300:FF:000025 ATP-dependent Clp protease subunit
168 359 FunFam G3DSA:3.40.50.300:FF:000010 Chaperone clpB 1, putative
198 358 CDD cd00009 AAA
592 757 Pfam PF07724 AAA domain (Cdc48 subfamily)
592 757 InterPro IPR003959 ATPase, AAA-type, core
170 359 Gene3D G3DSA:3.40.50.300 -
170 359 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
4 47 Pfam PF02861 Clp amino terminal domain, pathogenicity island component
4 47 InterPro IPR004176 Clp, repeat (R) domain
360 450 Pfam PF17871 AAA lid domain
360 450 InterPro IPR041546 ClpA/ClpB, AAA lid domain
596 614 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature
596 614 InterPro IPR001270 ClpA/B family
670 688 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature
670 688 InterPro IPR001270 ClpA/B family
641 659 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature
641 659 InterPro IPR001270 ClpA/B family
703 717 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature
703 717 InterPro IPR001270 ClpA/B family
763 859 Gene3D G3DSA:1.10.8.60 -
1 140 Gene3D G3DSA:1.10.1780.10 -
1 140 InterPro IPR036628 Clp, N-terminal domain superfamily
1 139 ProSiteProfiles PS51903 Clp repeat (R) domain profile.
1 139 InterPro IPR004176 Clp, repeat (R) domain
541 834 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
541 834 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
766 837 Pfam PF10431 C-terminal, D2-small domain, of ClpB protein
766 837 InterPro IPR019489 Clp ATPase, C-terminal
544 760 Gene3D G3DSA:3.40.50.300 -
544 760 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
1 846 NCBIfam TIGR03345 type VI secretion system ATPase TssH
1 846 InterPro IPR017729 AAA+ ATPase ClpV1
361 539 Gene3D G3DSA:3.40.50.300 -
361 539 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
763 855 SMART SM01086 ClpB_D2_small_2
763 855 InterPro IPR019489 Clp ATPase, C-terminal
220 332 Pfam PF00004 ATPase family associated with various cellular activities (AAA)
220 332 InterPro IPR003959 ATPase, AAA-type, core
4 839 PANTHER PTHR11638 ATP-DEPENDENT CLP PROTEASE
429 449 Coils Coil Coil
592 765 SMART SM00382 AAA_5
592 765 InterPro IPR003593 AAA+ ATPase domain
215 360 SMART SM00382 AAA_5
215 360 InterPro IPR003593 AAA+ ATPase domain
2 106 SUPERFAMILY SSF81923 Double Clp-N motif
2 106 InterPro IPR036628 Clp, N-terminal domain superfamily
554 760 CDD cd19499 RecA-like_ClpB_Hsp104-like

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 · P2Rank

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

Pocket 1 P2Rank #1
0.636
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.527
Likely same site as FPocket 15 3.1 Å 20 shared residues 100% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.175
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.124
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.086
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Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #15
0.394 Unusual size
Likely same site as P2Rank 2 3.1 Å 20 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_A0A0H3GSF4
AlphaFold DB full sequence Viewing
ColabFold VK055_1100
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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
ACP PDB via homolog 505.2 Da · LogP -1.52 · TPSA 269.9 Open detail RCSB PDB
AGS PDB via homolog Detail RCSB PDB
ANP PDB via homolog Detail RCSB PDB
MNT PDB via homolog Detail RCSB PDB
RPI 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
ACP RCSB PDB Q9RA63 505.2 Da LogP -1.52 TPSA 269.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
AGS RCSB PDB E0J719 523.2 Da LogP -1.51 TPSA 262.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ANP RCSB PDB Q9RA63 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
MNT RCSB PDB Q9RA63 544.4 Da LogP 1.19 TPSA 230.5 2 viol. ✓ Clean CNc1ccccc1C(=O)O[C@H]2C[C@@H](O[C@@H]2CO[P@](=O…
RPI RCSB PDB P37571 254.2 Da LogP -1.61 TPSA 168.8 1 viol. ✓ Clean [H]/N=C(/NCCC[C@@H](C(=O)O)N)\NP(=O)(O)O
SRT RCSB PDB P37571 150.1 Da LogP -2.12 TPSA 115.1 ✓ Ro5 ✓ Clean [C@H]([C@H](C(=O)O)O)(C(=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.

Cross-references

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