KpATCC43816 Protein target profile

NAD(P)(+) transhydrogenase (AB-specific), alpha subunit

Accession: VK055_0978

Gene: AIK79601.1 pntA 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GSU8
Length 509
Pocket druggability (P2Rank · AlphaFold DB model) 0.897
Direct ligand evidence 0 60 total records
Functional annotation 1 EC 7 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 (%)
57.447 Lower values reduce human off-target concern.
Human E-value
1.22e-10
Gut microbiome similarity
4.6% 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
91.7 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) 0.897
Structure A0A0H3GSU8
Pocket Pocket 1
Druggability (FPocket) 0.829
Structure A0A0H3GSU8
Pocket Pocket 22
ColabFold model
P2Rank 0.947 · Pocket 1
FPocket 0.072 · Pocket 28
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 216 / 4744 genomes with a hit
Prevalence 4.6%

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.

MRIGVPQERLAQETRAAATPKTVEQLLKLGFSVAVESGAGKLASFDDEAFAEAGAEIVTGDEVWQSDVILKVNAPNDDEIALLNPGTTLISFIWPAQNPQLMEKLAARNINVMAMDSVPRISRAQSLDALSSMANIAGYRAIVEAAHEFGRFFTGQITAAGKVPPAKVMVIGAGVAGLAAIGAANSLGAIVRAFDTRPEVKEQVQSMGAEFLELDFKEEAGSGDGYAKVMSEAFIKAEMALFAAQAKEVDIIVTTALIPGKPAPKLITREMVDSMKSGSVVVDLASQNGGNCEYTVPGEVVTTANGVKIIGYTDLPGRLPTQSSQLYGTNLVNLLKLLCKEKDGNIVIDFDDVVVRGVTVVREGEITWPAPPIQVSAQPQAAAKKVEAPKEAVKPASPWRKYALMALAIILFGWLANVAPKEFLGHFTVFALACVVGYYVVWNVSHALHTPLMSVTNAISGIIVVGALLQIGHGGWVSFLSFIAVLIASINIFGGFTVTQRMLKMFRKG

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Subcellular localization

Localization
CytoplasmicMembrane

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:1902600 The directed movement of a proton across a membrane.
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0008746 OBSOLETE. Catalysis of the reaction: NADPH + H+ + NAD+ = NADP+ + NADH + H+.
  • 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:0050661 Binding to nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
  • GO:0008750 Catalysis of the reaction: H+(in) + NAD+ + NADPH = H+(out) + NADH + NADP+.
  • GO:0006740 A metabolic process that generates a pool of NADPH by the reduction of NADP+.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

38 records
Show feature table
Start End DB Term Name
4 137 Pfam PF05222 Alanine dehydrogenase/PNT, N-terminal domain
4 137 InterPro IPR007886 Alanine dehydrogenase/pyridine nucleotide transhydrogenase, N-terminal
402 419 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
4 356 Gene3D G3DSA:3.40.50.720 -
423 445 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
4 141 FunFam G3DSA:3.40.50.720:FF:000063 NAD(P) transhydrogenase subunit alpha
452 471 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
443 453 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
170 195 ProSitePatterns PS00837 Alanine dehydrogenase & pyridine nucleotide transhydrogenase signature 2.
170 195 InterPro IPR008143 Alanine dehydrogenase/pyridine nucleotide transhydrogenase, conserved site-2
499 509 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
2 509 NCBIfam TIGR00561 Re/Si-specific NAD(P)(+) transhydrogenase subunit alpha
2 509 InterPro IPR026255 NAD(P) transhydrogenase, alpha subunit
474 478 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 398 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
418 422 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
141 368 Pfam PF01262 Alanine dehydrogenase/PNT, C-terminal domain
141 368 InterPro IPR007698 Alanine dehydrogenase/pyridine nucleotide transhydrogenase, NAD(H)-binding domain
423 442 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
169 191 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 168 SUPERFAMILY SSF52283 Formate/glycerate dehydrogenase catalytic domain-like
454 473 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
146 311 SMART SM01002 AlaDh_PNT_C_2
146 311 InterPro IPR007698 Alanine dehydrogenase/pyridine nucleotide transhydrogenase, NAD(H)-binding domain
476 498 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 352 CDD cd05304 Rubrum_tdh
2 508 PANTHER PTHR10160 NAD(P) TRANSHYDROGENASE
137 318 Gene3D G3DSA:3.40.50.720 -
479 498 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
427 508 Pfam PF12769 4TM region of pyridine nucleotide transhydrogenase, mitoch
427 508 InterPro IPR024605 NAD(P) transhydrogenase, alpha subunit, C-terminal
142 318 FunFam G3DSA:3.40.50.720:FF:000028 NAD(P) transhydrogenase subunit alpha
4 137 SMART SM01003 AlaDh_PNT_N_2
137 317 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
137 317 InterPro IPR036291 NAD(P)-binding domain superfamily
1 508 PIRSF PIRSF000203 NADP_transhydrogenase_alpha
1 508 InterPro IPR026255 NAD(P) transhydrogenase, alpha subunit
399 417 Phobius TRANSMEMBRANE 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
0.897
Likely same site as FPocket 22 5.3 Å 24 shared residues 92% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.451
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #22
0.829 Unusual size
Likely same site as P2Rank 1 5.3 Å 24 shared residues 92% 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_A0A0H3GSU8
AlphaFold DB full sequence Viewing
ColabFold VK055_0978
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.

60 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 10 records from similar proteins
Structural ligands 9 0 loaded crystals
Measured bioactivity 1 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
2OP PDB via homolog 90.1 Da · LogP -0.55 · TPSA 57.5 Open detail RCSB PDB
APR PDB via homolog Detail RCSB PDB
D12 PDB via homolog Detail RCSB PDB
NKV PDB via homolog Detail RCSB PDB
PC1 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
2OP RCSB PDB P9WQB1 90.1 Da LogP -0.55 TPSA 57.5 ✓ Ro5 ✓ Clean C[C@@H](C(=O)O)O
APR RCSB PDB Q2RSB2 559.3 Da LogP -3.28 TPSA 291.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
D12 RCSB PDB W5PFI3 170.3 Da LogP 4.93 TPSA 0.0 ✓ Ro5 ✓ Clean CCCCCCCCCCCC
NKV RCSB PDB P9WQB1 337.3 Da LogP -0.97 TPSA 142.6 ✓ Ro5 ✓ Clean CC(C)C(=O)Nc1c2c(ncn1)n(cn2)[C@H]3[C@@H]([C@@H]…
PC1 RCSB PDB W5PFI3 790.2 Da LogP 12.17 TPSA 111.2 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)([O-])…
PYR RCSB PDB O52942 88.1 Da LogP -0.34 TPSA 54.4 ✓ Ro5 ✓ Clean CC(=O)C(=O)O
SND RCSB PDB Q2RSB2 679.5 Da LogP -3.11 TPSA 304.0 3 viol. ✓ Clean c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(…
TXD RCSB PDB Q2RSB2 667.5 Da LogP -3.30 TPSA 317.6 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
TXP RCSB PDB Q2RSB2 747.4 Da LogP -3.18 TPSA 364.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…

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.