Protein target profile

KP13_04637

L-lactate dehydrogenase cytochrome

Genome: KpKP13 Gene: AHE44103.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GUV4
Length 394
Pocket druggability 0.935
Direct ligand evidence 0 191 total records
Functional annotation 0 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 (%)
35.695 Lower values reduce human off-target concern.
Human E-value
4.78e-66
Gut microbiome similarity
2.6% 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.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
93.0 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 0.935
Structure A0A0H3GUV4
Pocket Pocket 1
P2Rank 0.969
Structure A0A0H3GUV4
Pocket Pocket 1
ColabFold model
FPocket 0.852 · Pocket 1
P2Rank 0.968 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 123 / 4744 genomes with a hit
Prevalence 2.6%

Cross-references

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

Chemistry

ChEMBL CHEMBL6034149 ChEMBL CHEMBL6006896 ChEMBL CHEMBL4855986 ChEMBL CHEMBL5760531 ChEMBL CHEMBL5777465 ChEMBL CHEMBL5782154 ChEMBL CHEMBL5801102 ChEMBL CHEMBL5838689 ChEMBL CHEMBL5839087 ChEMBL CHEMBL5846042 ChEMBL CHEMBL5850203 ChEMBL CHEMBL5854222 ChEMBL CHEMBL5864315 ChEMBL CHEMBL5952776 ChEMBL CHEMBL5954178 ChEMBL CHEMBL5959206 ChEMBL CHEMBL5968915 ChEMBL CHEMBL5973858 ChEMBL CHEMBL5985259 ChEMBL CHEMBL5994255 ChEMBL CHEMBL6006430 ChEMBL CHEMBL4861379 ChEMBL CHEMBL5753348 ChEMBL CHEMBL5755685 ChEMBL CHEMBL5756785 ChEMBL CHEMBL5757823 ChEMBL CHEMBL5806146 ChEMBL CHEMBL5814643 ChEMBL CHEMBL5823871 ChEMBL CHEMBL5835259 ChEMBL CHEMBL5839502 ChEMBL CHEMBL5844750 ChEMBL CHEMBL5854368 ChEMBL CHEMBL5920613 ChEMBL CHEMBL5941699 ChEMBL CHEMBL5947976 ChEMBL CHEMBL5962104 ChEMBL CHEMBL5978848 ChEMBL CHEMBL5984508 ChEMBL CHEMBL6001061 ChEMBL CHEMBL6002960 ChEMBL CHEMBL6033494 ChEMBL CHEMBL6037542 ChEMBL CHEMBL6046125 ChEMBL CHEMBL6051541 ChEMBL CHEMBL6055355 ChEMBL CHEMBL5743261 ChEMBL CHEMBL5750950 ChEMBL CHEMBL5751458 ChEMBL CHEMBL5774638 ChEMBL CHEMBL5816289 ChEMBL CHEMBL5843855 ChEMBL CHEMBL5851208 ChEMBL CHEMBL5875394 ChEMBL CHEMBL5884395 ChEMBL CHEMBL5944532 ChEMBL CHEMBL5953250 ChEMBL CHEMBL5975526 ChEMBL CHEMBL5978124 ChEMBL CHEMBL5979221 ChEMBL CHEMBL5996587 ChEMBL CHEMBL6014903 ChEMBL CHEMBL6036181 ChEMBL CHEMBL6051146 ChEMBL CHEMBL6052877 ChEMBL CHEMBL6053570 ChEMBL CHEMBL4847068 ChEMBL CHEMBL5788143 ChEMBL CHEMBL5810319 ChEMBL CHEMBL5820011 ChEMBL CHEMBL5828943 ChEMBL CHEMBL5831679 ChEMBL CHEMBL5859876 ChEMBL CHEMBL5866917 ChEMBL CHEMBL5878824 ChEMBL CHEMBL5888439 ChEMBL CHEMBL5906212 ChEMBL CHEMBL5954186 ChEMBL CHEMBL5974421 ChEMBL CHEMBL5992553 ChEMBL CHEMBL5744157 ChEMBL CHEMBL5801662 ChEMBL CHEMBL5805975 ChEMBL CHEMBL5822945 ChEMBL CHEMBL5838670 ChEMBL CHEMBL5866960 ChEMBL CHEMBL5879599 ChEMBL CHEMBL5938881 ChEMBL CHEMBL5998510 ChEMBL CHEMBL6000579 ChEMBL CHEMBL6013933 ChEMBL CHEMBL6060494 ChEMBL CHEMBL5827792 ChEMBL CHEMBL5889788 ChEMBL CHEMBL5891518 ChEMBL CHEMBL5952692 ChEMBL CHEMBL5960547 ChEMBL CHEMBL5987539 ChEMBL CHEMBL6021462 ChEMBL CHEMBL5756794

Sequence

Primary amino-acid sequence viewer.

MIVSAPSDYREAARRRLPRFLFDYIDGGAVAENTMNANAAELASVALRQRVLCGAGEPTLATTILDAPWAMPVALGPVGATGMYARRGEVQAARAASRAGIPYTLSTVSVCSIEEVASHASGALWSQLYVLKDRGYMRNALERAWAAGMKTLVFTVDMPIPGSRYRDNRSGMSGPHATLRQYLQACTHPRWAMNVGLAGRPLSFGNIEAYTGHKMTMDDYMGFISNNFDPSIAWHDLEWIRDSWQGKLIIKGILDADDARNAVRLGADGIVVSNHGGRQLDGAIPTARALPRVVDAVGDDLTVLADSGVRSGVDVIRLLALGAKGVLLGRAYIYALAAAGEAGVAHLLRLFAEDMKVTMTLTGATSPSAISLDCLDRLEQDQHRTHAVPVSLPA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

7 GO

Gene Ontology (GO)

7
  • 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:0006089 The chemical reactions and pathways involving lactate, the anion of lactic acid.
  • GO:0010181 Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
  • GO:0004457 Catalysis of the reaction: lactate + NAD+ = H+ + NADH + pyruvate.
  • 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:0004459 Catalysis of the reaction: (S)-lactate + NAD+ = pyruvate + NADH + H+.
  • GO:0009060 The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
273 279 ProSitePatterns PS00557 FMN-dependent alpha-hydroxy acid dehydrogenases active site.
273 279 InterPro IPR008259 FMN-dependent alpha-hydroxy acid dehydrogenase, active site
3 389 Gene3D G3DSA:3.20.20.70 Aldolase class I
3 389 InterPro IPR013785 Aldolase-type TIM barrel
2 380 FunFam G3DSA:3.20.20.70:FF:000029 L-lactate dehydrogenase
13 375 Pfam PF01070 FMN-dependent dehydrogenase
13 375 InterPro IPR000262 FMN-dependent dehydrogenase
7 371 CDD cd02809 alpha_hydroxyacid_oxid_FMN
7 371 InterPro IPR012133 Alpha-hydroxy acid dehydrogenase, FMN-dependent
2 380 PIRSF PIRSF000138 Al-hdrx_acd_dh
2 380 InterPro IPR012133 Alpha-hydroxy acid dehydrogenase, FMN-dependent
1 380 ProSiteProfiles PS51349 FMN-dependent alpha-hydroxy acid dehydrogenase domain profile.
1 380 InterPro IPR037396 FMN hydroxy acid dehydrogenase domain
1 375 NCBIfam NF033901 FMN-dependent L-lactate dehydrogenase LldD
1 375 InterPro IPR020920 L-lactate dehydrogenase, bacterial
6 374 PANTHER PTHR10578 S -2-HYDROXY-ACID OXIDASE-RELATED
7 370 SUPERFAMILY SSF51395 FMN-linked oxidoreductases

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
0.935
Likely same site as P2Rank 1 0.4 Å 32 shared residues 91% of smaller site
Unusual size
Show in viewer
Surrounding area
Site 2 FPocket #23
0.307
Likely same site as P2Rank 2 5.0 Å 9 shared residues 82% of smaller site
Show in viewer
Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.969
Likely same site as FPocket 1 0.4 Å 32 shared residues 91% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.577
Likely same site as FPocket 23 5.0 Å 9 shared residues 82% of smaller site
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.083
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.066
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.014
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:275-275 Proton acceptor
UniProt: Binding site:106-106
UniProt: Binding site:127-127
UniProt: Binding site:129-129
UniProt: Binding site:155-155
UniProt: Binding site:164-164
UniProt: Binding site:24-24
UniProt: Binding site:251-251
UniProt: Binding site:273-273
UniProt: Binding site:275-275
UniProt: Binding site:278-278
UniProt: Binding site:306-310
UniProt: Binding site:329-330
UniProt: Binding site:77-79
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_A0A0H3GUV4
AlphaFold DB full sequence Viewing
ColabFold KP13_04637
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.

191 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 141 records from similar proteins
Structural ligands 41 0 loaded crystals
Measured bioactivity 100 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
173 PDB via homolog 150.1 Da · LogP 0.95 · TPSA 54.4 Open detail RCSB PDB
2OP PDB via homolog Detail RCSB PDB
3IL PDB via homolog Detail RCSB PDB
9NL PDB via homolog Detail RCSB PDB
9NO 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
173 RCSB PDB O52792 150.1 Da LogP 0.95 TPSA 54.4 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)C(=O)O
2OP RCSB PDB O52792 90.1 Da LogP -0.55 TPSA 57.5 ✓ Ro5 ✓ Clean C[C@@H](C(=O)O)O
3IL RCSB PDB P20932 205.2 Da LogP 1.16 TPSA 73.3 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)C[C@@H](C(=O)O)O
9NL RCSB PDB O52792 202.2 Da LogP 1.22 TPSA 57.5 ✓ Ro5 ✓ Clean c1ccc(cc1)C([C@@H](C(=O)O)O)(F)F
9NO RCSB PDB O52792 218.2 Da LogP 0.54 TPSA 77.8 ✓ Ro5 ✓ Clean c1ccc(cc1)C(C(C(=O)O)(O)O)(F)F
9O0 RCSB PDB O52792 144.0 Da LogP -0.01 TPSA 57.5 ✓ Ro5 ✓ Clean [C@@H](C(=O)O)(C(F)(F)F)O
9O3 RCSB PDB O52792 160.0 Da LogP -0.69 TPSA 77.8 ✓ Ro5 ✓ Clean C(=O)(C(C(F)(F)F)(O)O)O
9O6 RCSB PDB O52792 184.2 Da LogP 1.14 TPSA 57.5 ✓ Ro5 ✓ Clean c1ccc(cc1)[C@@H]([C@@H](C(=O)O)O)F
9O9 RCSB PDB O52792 455.4 Da LogP -1.00 TPSA 195.2 1 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=C2)C[C@@H]([C@…
9OC RCSB PDB O52792 576.5 Da LogP 0.23 TPSA 216.7 2 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2C[C@@H]([C@@H]([C@@H](COP…
9OR RCSB PDB O52792 544.4 Da LogP -1.54 TPSA 254.0 2 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2C[C@@H]([C@@H]([C@@H](COP…
9OU RCSB PDB O52792 562.5 Da LogP 0.30 TPSA 216.7 2 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2C[C@@H]([C@@H]([C@@H](COP…
9P3 RCSB PDB O52792 515.4 Da LogP -1.54 TPSA 218.8 2 viol. ✓ Clean Cc1cc2c(cc1C)[N@@+]3([C@]4(O3)C(=O)NC(=O)N=C4N2…
9P9 RCSB PDB O52792 606.5 Da LogP -1.84 TPSA 274.2 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2C[C@@H]([C@@H]([C@@H](COP…
9PX RCSB PDB O52792 548.4 Da LogP -1.21 TPSA 246.0 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)[C@@]3(N2)OOC(=O)…
9Q0 RCSB PDB O52792 607.5 Da LogP -3.07 TPSA 264.2 2 viol. ✓ Clean Cc1cc2c(cc1C)[n+](c3c([n+]2C[C@@H]([C@@H]([C@@H…
9Q6 RCSB PDB O52792 474.4 Da LogP -1.94 TPSA 221.5 1 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)[C@@]3(N2)O)C[C@@…
9QF RCSB PDB O52792 490.4 Da LogP -1.44 TPSA 230.7 2 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)[C@@]3(N2)OO)C[C@…
9RW RCSB PDB O52792 150.2 Da LogP 1.87 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@@H](c1ccccc1)C(=O)O
B8C RCSB PDB O52792 604.4 Da LogP -1.97 TPSA 305.3 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)[C@@]3(N2)O/C(=C(…
BEZ RCSB PDB O52792 122.1 Da LogP 1.38 TPSA 37.3 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)O
C7C RCSB PDB Q9UJM8 271.7 Da LogP 1.71 TPSA 65.9 ✓ Ro5 ✓ Clean c1cc(ccc1Sc2c(nns2)C(=O)[O-])Cl
F7C RCSB PDB O52792 148.1 Da LogP -1.91 TPSA 111.9 ✓ Ro5 ✓ Clean [C@H](C(=O)C(=O)O)(C(=O)O)O
F7F RCSB PDB O52792 472.3 Da LogP -1.59 TPSA 204.8 1 viol. ✓ Clean Cc1cc2c(cc1C)N3[C@@]4(O3)C(=O)NC(=O)N=C4N2C[C@H…
FNR RCSB PDB Q9UJM8 458.4 Da LogP -0.93 TPSA 208.4 1 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)C[C@@H]([C…
GLV RCSB PDB Q9UJM8 74.0 Da LogP -0.73 TPSA 54.4 ✓ Ro5 ✓ Clean C(=O)C(=O)O
GOA RCSB PDB Q9UJM8 76.1 Da LogP -0.94 TPSA 57.5 ✓ Ro5 ✓ Clean C(C(=O)O)O
HBX RCSB PDB O52792 106.1 Da LogP 1.50 TPSA 17.1 ✓ Ro5 ✓ Clean c1ccc(cc1)C=O
HFA RCSB PDB O52792 166.2 Da LogP 0.67 TPSA 57.5 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@@H](C(=O)O)O
HHH RCSB PDB O52792 168.1 Da LogP 0.51 TPSA 77.8 ✓ Ro5 ✓ Clean c1cc(ccc1[C@@H](C(=O)O)O)O
HOC RCSB PDB P20932 160.2 Da LogP 1.40 TPSA 57.5 ✓ Ro5 ✓ Clean CCCCCC[C@@H](C(=O)O)O
LMT RCSB PDB P20932 510.6 Da LogP -0.45 TPSA 178.5 3 viol. ✓ Clean CCCCCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1…
PAC RCSB PDB O52792 136.1 Da LogP 1.31 TPSA 37.3 ✓ Ro5 ✓ Clean c1ccc(cc1)CC(=O)O
PPY RCSB PDB O52792 164.2 Da LogP 0.88 TPSA 54.4 ✓ Ro5 ✓ Clean c1ccc(cc1)CC(=O)C(=O)O
PYR RCSB PDB O52792 88.1 Da LogP -0.34 TPSA 54.4 ✓ Ro5 ✓ Clean CC(=O)C(=O)O
RMN RCSB PDB O52792 152.1 Da LogP 0.80 TPSA 57.5 ✓ Ro5 ✓ Clean c1ccc(cc1)[C@H](C(=O)O)O
SL7 RCSB PDB Q9UJM8 394.4 Da LogP 2.69 TPSA 140.4 ✓ Ro5 Alert CN(C)c1nc(on1)c2cccc(c2O)CNc3ccc4c(c3)c([nH]n4)…
SLG RCSB PDB Q9UJM8 471.3 Da LogP 6.25 TPSA 73.4 1 viol. ✓ Clean CN(Cc1ccc(cc1c2ccc(c(c2)Cl)C(=O)O)F)C(=O)c3cc4c…
SLJ RCSB PDB Q9UJM8 340.4 Da LogP 3.08 TPSA 91.3 ✓ Ro5 ✓ Clean CCCOc1c(cccn1)CN(C)c2ccc3c(c2)c([nH]n3)C(=O)O
SMN RCSB PDB O52792 152.1 Da LogP 0.80 TPSA 57.5 ✓ Ro5 ✓ Clean c1ccc(cc1)[C@@H](C(=O)O)O
YOJ RCSB PDB Q9UJM8 733.7 Da LogP 5.44 TPSA 216.3 3 viol. ✓ Clean c1cc(ccc1c2cc(ccc2F)c3c(c(n(n3)c4nc(cs4)C(=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.