Protein profile

KP13_02574

Formate hydrogenlyase subunit 3

Genome: KpKP13

Gene: AHE43035.1 hycC Structure source: AlphaFold + ColabFold UniProt A0A0H3GX92
Amino acids 602
Annotations 4
Features 55
PDB binders 10
Druggability 0.971

Overview

Basic information about this protein and its source genome.

Accession
KP13_02574
Gene
AHE43035.1 hycC
Status
annotated
Amino acids
602
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
27.027
Human E-value
1.43e-14
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
93.86

Selected Druggability evidence

AlphaFold / UniProt model

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.971
Structure A0A0H3GX92
Pocket Pocket 15
P2Rank 0.707
Structure A0A0H3GX92
Pocket Pocket 1
ColabFold model
FPocket 0.884 · Pocket 26
P2Rank 0.666 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 55 / 4744 genomes with a hit
Normalized 0.012

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • GO:0042773 The transfer of electrons through a series of electron donors and acceptors, generating energy that is ultimately used for synthesis of ATP.
  • GO:0008137 Catalysis of the reaction: NADH + ubiquinone + 5 H+(in) = NAD+ + ubiquinol + 4 H+(out).
  • 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: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.

Sequence Features

Domain/signature hits from InterPro and related databases.

55 records
Show feature table
Start End DB Term Name
31 50 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
492 514 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
319 341 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
600 602 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
363 390 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
90 108 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
28 50 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
71 89 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
109 139 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
105 127 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
172 190 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
140 150 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
410 430 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
70 92 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 21 Phobius SIGNAL_PEPTIDE Signal peptide region
580 599 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
151 171 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
192 214 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
131 153 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
144 399 Pfam PF00361 Proton-conducting membrane transporter
144 399 InterPro IPR001750 NADH:quinone oxidoreductase/Mrp antiporter, membrane subunit
227 249 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
476 494 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
362 381 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
22 30 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
191 212 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
51 70 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
455 477 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
213 223 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
324 343 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
282 304 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
344 362 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
252 275 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
282 304 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
253 275 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
247 251 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
4 21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
224 246 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
4 17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
495 515 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
368 394 PRINTS PR01437 NADH-ubiquinone oxidoreductase subunit 4 signature
368 394 InterPro IPR003918 NADH:ubiquinone oxidoreductase
218 242 PRINTS PR01437 NADH-ubiquinone oxidoreductase subunit 4 signature
218 242 InterPro IPR003918 NADH:ubiquinone oxidoreductase
3 600 PANTHER PTHR42682 HYDROGENASE-4 COMPONENT F
516 579 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
276 281 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
431 450 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
451 475 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
401 423 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
391 409 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
155 177 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
305 323 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
18 21 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 2

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3GX92
AlphaFold full sequence Viewing
ColabFold KP13_02574
ColabFold full sequence Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
15 0.971
7 0.692
30 0.679
29 0.246

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 10.43 0.561
2 8.14 0.433
3 7.24 0.377
4 4.29 0.177
5 3.18 0.109

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

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
BCR Q8DKY0 536.9 Da LogP 12.61 TPSA 0.0 2 viol. ✓ Clean CC1=C(C(CCC1)(C)C)\C=C\C(=C\C=C\C(=C\C=C\C=C(/C…
DGD Q8DKY0 949.3 Da LogP 7.61 TPSA 231.1 4 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[C@H]1[C@@H]([C…
FES Q8DKY0 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1
LHG Q8DKY0 723.0 Da LogP 9.89 TPSA 148.8 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OC[C@…
LMG Q8DKY0 787.2 Da LogP 9.78 TPSA 152.0 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[C@H]1[C@@H]([C…
LMT A0A221C8X0 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…
PL9 Q8DKY0 749.2 Da LogP 16.57 TPSA 34.1 2 viol. Alert CC1=C(C(=O)C(=CC1=O)CC=C(C)CCC=C(C)CCC=C(C)CCC=…
PQN Q8DKY0 450.7 Da LogP 9.16 TPSA 34.1 1 viol. Alert CC1=C(C(=O)c2ccccc2C1=O)C\C=C(/C)\CCC[C@H](C)CC…
PTY B7GL84 734.1 Da LogP 11.67 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCCCC(=O)O[C@H](COC(=O)CCCCCCCCC…
SQD Q8DKX9 795.1 Da LogP 8.12 TPSA 186.1 3 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](COC1[C@@H]([C@H]([C…

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.