KpATCC43816 Protein target profile

thiol reductant ABC exporter, CydD subunit

Accession: VK055_1567

Gene: AIK80187.1 cydD 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GKY7
Length 588
Pocket druggability (P2Rank · AlphaFold DB model) 0.612
Direct ligand evidence 0 54 total records
Functional annotation 0 EC 8 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 (%)
42.424 Lower values reduce human off-target concern.
Human E-value
3.8e-10
Gut microbiome similarity
2.7% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
81.293 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
91.32 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) 0.612
Structure A0A0H3GKY7
Pocket Pocket 1
Druggability (FPocket) 0.682
Structure A0A0H3GKY7
Pocket Pocket 16
ColabFold model
P2Rank 0.192 · Pocket 1
FPocket 0.721 · Pocket 45
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 126 / 4744 genomes with a hit
Prevalence 2.7%

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.

MNKTRQQELTRWLKQQSIISRRWLMISRLLGVASGLLIVAQAWFLARILHRMVMENIPATALLLPLTLLVLIFVLRAWVVWLRERVGFQAGQHIRYEIRRQVLDRLQQAGPAWIQGKPAGSWATLILEQIDDMHDYYARYLPQMTLAACVPLLIVITIFPINWAAALILLGTAPLIPLFMALVGMGAADANRRNFQALARLSGHFLDRLRGMETLRIFHRGQAETDNIRDASQDFRQRTMEVLRLAFLSSGVLEFFTSLSIALVAVYFGFSYLGELNFGHYGAGVTLMAGFLTLILAPEFFQPLRDLGTFYHAKAQAVGAADSLKTFMETPLTQVERGEKTLNDNDLISVEARDLVIKSPEGKVLAGPLNFALPAGARVVLVGQSGSGKSSLLNTLLGFLPYEGSLMVNGVELRELDAERWRRLLSWVGQNPQLPAATLRENVLLAWPEASEAQLRLALDKAWVSEFIALLPQGIHTAVGDQAGRLSVGQAQRIAVARALLVPCRLLLLDEPAASLDAHSEQRVMQALIHASSEQTTLLVTHQLEGLADWDDVWVMQDGQIIEQGDYATLARAGGVFSALLAHRQEEI

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

8 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

8
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0042883 The directed movement of cysteine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • GO:0140359 Primary active transporter characterized by two nucleotide-binding domains and two transmembrane domains. Uses the energy generated from ATP hydrolysis to drive the transport of a substance across a membrane.
  • 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:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0034040 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + lipid(in) = ADP + phosphate + lipid(out).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

46 records
Show feature table
Start End DB Term Name
486 500 ProSitePatterns PS00211 ABC transporters family signature.
486 500 InterPro IPR017871 ABC transporter-like, conserved site
25 292 Pfam PF00664 ABC transporter transmembrane region
25 292 InterPro IPR011527 ABC transporter type 1, transmembrane domain
29 316 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile.
29 316 InterPro IPR011527 ABC transporter type 1, transmembrane domain
245 267 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
273 277 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
342 588 FunFam G3DSA:3.40.50.300:FF:000980 Cysteine/glutathione ABC transporter permease/ATP-binding protein CydD
21 556 NCBIfam TIGR02857 thiol reductant ABC exporter subunit CydD
21 556 InterPro IPR014216 ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD
345 588 Gene3D G3DSA:3.40.50.300 -
345 588 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
51 580 PANTHER PTHR24221 ATP-BINDING CASSETTE SUB-FAMILY B
51 580 InterPro IPR039421 Type 1 protein exporter
167 188 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
351 582 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
351 582 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
140 161 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
350 583 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile.
350 583 InterPro IPR003439 ABC transporter-like, ATP-binding domain
29 324 CDD cd18584 ABC_6TM_AarD_CydD
162 166 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
375 560 SMART SM00382 AAA_5
375 560 InterPro IPR003593 AAA+ ATPase domain
282 304 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
189 244 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
23 45 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
80 139 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
2 332 FunFam G3DSA:1.20.1560.10:FF:000039 Cysteine/glutathione ABC transporter permease/ATP-binding protein CydD
245 272 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
11 331 SUPERFAMILY SSF90123 ABC transporter transmembrane region
11 331 InterPro IPR036640 ABC transporter type 1, transmembrane domain superfamily
60 82 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
137 159 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
369 513 Pfam PF00005 ABC transporter
369 513 InterPro IPR003439 ABC transporter-like, ATP-binding domain
21 45 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
3 331 Gene3D G3DSA:1.20.1560.10 ABC transporter type 1, transmembrane domain
3 331 InterPro IPR036640 ABC transporter type 1, transmembrane domain superfamily
57 79 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
298 588 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
278 297 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
46 56 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
163 185 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.

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
0.612
Likely same site as FPocket 16 4.3 Å 13 shared residues 81% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.238
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Surrounding area
Pocket 3 P2Rank #3
0.218
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Surrounding area
Pocket 4 P2Rank #4
0.142
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Surrounding area
Pocket 5 P2Rank #5
0.071
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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 #16
0.682 Unusual size
Likely same site as P2Rank 1 4.3 Å 13 shared residues 81% 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_A0A0H3GKY7
AlphaFold DB full sequence Viewing
ColabFold VK055_1567
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
0SA PDB via homolog 512.7 Da · LogP -0.13 · TPSA 169.3 Open detail RCSB PDB
AGS PDB via homolog Detail RCSB PDB
ANP PDB via homolog Detail RCSB PDB
O34 PDB via homolog Detail RCSB PDB
ZINC100053481 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
0SA RCSB PDB P34712 512.7 Da LogP -0.13 TPSA 169.3 3 viol. ✓ Clean CCCCCCCCCCCS[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)…
AGS RCSB PDB Q9WYC4 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 P63359 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)…
O34 RCSB PDB Q1RAG2 481.7 Da LogP 2.66 TPSA 114.5 ✓ Ro5 ✓ Clean C[C@@]1(CSC(=N1)C(C)(C)[C@@H]([C@@H]2CS[C@@H](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.