Protein profile

VK055_2161

cytochrome o ubiquinol oxidase, subunit I

Genome: KpATCC43816

Gene: cyoB AIK80766.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GNJ6
Amino acids 604
Annotations 11
Features 80
PDB binders 33
Druggability 0.998

Overview

Basic information about this protein and its source genome.

Accession
VK055_2161
Gene
cyoB AIK80766.1
Status
annotated
Amino acids
604
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
40.126
Human E-value
2.77e-104
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
49.663
DEG E-value
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
97.28

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 0.998
Structure A0A0H3GNJ6
Pocket Pocket 26
P2Rank 0.999
Structure A0A0H3GNJ6
Pocket Pocket 1
ColabFold model
FPocket 0.996 · Pocket 2
P2Rank 0.999 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 215 / 4744 genomes with a hit
Normalized 0.045

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 10 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

10
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0009060 The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
  • GO:0004129 Catalysis of the reaction: 4 Fe(II)-[cytochrome c] + O2 + 8 H+(in) = 4 Fe(III)-[cytochrome c] + 2 H2O + 4 H+(out).
  • GO:0020037 Binding to a heme, a compound composed of iron complexed in a porphyrin (tetrapyrrole) ring.
  • GO:0016682 Catalysis of an oxidation-reduction (redox) reaction in which a diphenol, or related compound, acts as a hydrogen or electron donor and reduces oxygen.
  • 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:0009486 Catalysis of the reaction: 2 ubiquinol + O2 + 4 H+ = 2 ubiquinone + 2 H2O + 4 H+ [periplasmic space].
  • GO:0046872 Binding to a metal ion.
  • GO:0015990 The transport of protons against an electrochemical gradient, using energy from electron transport.
  • GO:0022904 A process in which a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.

Sequence Features

Domain/signature hits from InterPro and related databases.

80 records
Show feature table
Start End DB Term Name
3 11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
288 310 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
321 344 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 493 FunFam G3DSA:1.20.210.10:FF:000002 Cytochrome o ubiquinol oxidase, subunit I
112 130 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 17 SignalP_EUK SignalP-TM SignalP-TM
356 377 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
216 239 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
421 431 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
132 154 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
87 111 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
398 420 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
221 275 ProSitePatterns PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature.
221 275 InterPro IPR023615 Cytochrome c oxidase, subunit I, copper-binding site
155 173 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
81 103 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 531 SUPERFAMILY SSF81442 Cytochrome c oxidase subunit I-like
1 531 InterPro IPR036927 Cytochrome c oxidase-like, subunit I superfamily
174 196 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
432 459 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
46 68 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
251 273 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 493 CDD cd01662 Ubiquinol_Oxidase_I
30 44 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
569 604 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
345 355 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
378 397 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 444 Pfam PF00115 Cytochrome C and Quinol oxidase polypeptide I
1 444 InterPro IPR000883 Cytochrome c oxidase subunit I
1 500 ProSiteProfiles PS50855 Cytochrome oxidase subunit I profile.
1 500 InterPro IPR023616 Cytochrome c oxidase-like, subunit I domain
251 275 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
310 320 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
197 215 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
216 238 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
174 196 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
45 67 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
131 154 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
240 250 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 588 NCBIfam TIGR02843 cytochrome o ubiquinol oxidase subunit I
1 588 InterPro IPR014207 Cytochrome o ubiquinol oxidase, subunit I
398 420 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 508 PANTHER PTHR10422 CYTOCHROME C OXIDASE SUBUNIT 1
1 508 InterPro IPR000883 Cytochrome c oxidase subunit I
68 86 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
1 493 Gene3D G3DSA:1.20.210.10 -
1 493 InterPro IPR036927 Cytochrome c oxidase-like, subunit I superfamily
531 553 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
12 29 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
435 457 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
276 286 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
460 534 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
323 345 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
355 377 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
287 309 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 29 Phobius SIGNAL_PEPTIDE Signal peptide region
535 568 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
65 89 PRINTS PR01165 Cytochrome c oxidase subunit I signature
65 89 InterPro IPR000883 Cytochrome c oxidase subunit I
139 157 PRINTS PR01165 Cytochrome c oxidase subunit I signature
139 157 InterPro IPR000883 Cytochrome c oxidase subunit I
168 187 PRINTS PR01165 Cytochrome c oxidase subunit I signature
168 187 InterPro IPR000883 Cytochrome c oxidase subunit I
324 342 PRINTS PR01165 Cytochrome c oxidase subunit I signature
324 342 InterPro IPR000883 Cytochrome c oxidase subunit I
107 119 PRINTS PR01165 Cytochrome c oxidase subunit I signature
107 119 InterPro IPR000883 Cytochrome c oxidase subunit I
352 371 PRINTS PR01165 Cytochrome c oxidase subunit I signature
352 371 InterPro IPR000883 Cytochrome c oxidase subunit I
402 423 PRINTS PR01165 Cytochrome c oxidase subunit I signature
402 423 InterPro IPR000883 Cytochrome c oxidase subunit I
38 61 PRINTS PR01165 Cytochrome c oxidase subunit I signature
38 61 InterPro IPR000883 Cytochrome c oxidase subunit I
265 280 PRINTS PR01165 Cytochrome c oxidase subunit I signature
265 280 InterPro IPR000883 Cytochrome c oxidase subunit I
289 310 PRINTS PR01165 Cytochrome c oxidase subunit I signature
289 310 InterPro IPR000883 Cytochrome c oxidase subunit I
219 240 PRINTS PR01165 Cytochrome c oxidase subunit I signature
219 240 InterPro IPR000883 Cytochrome c oxidase subunit I

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_A0A0H3GNJ6
AlphaFold full sequence Viewing
ColabFold VK055_2161
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
26 0.998
42 0.822
4 0.233

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
1 132.66 0.998
2 12.89 0.666
3 10.33 0.555
4 8.46 0.451
5 5.19 0.24

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.

83 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
3PE P0ABI8 748.1 Da LogP 12.06 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)(O)OCCN)OC…
4AG P98005 568.9 Da LogP 10.40 TPSA 72.8 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@@H](CO)OC(=O)CCCCCCCCC…
5PL P98005 1233.7 Da LogP 15.13 TPSA 245.7 4 viol. ✓ Clean CCCCCCCCCCCCCCCCCCCNC(=O)[C@@H](CO[C@@H]1[C@@H]…
7E8 P98005 300.4 Da LogP 3.36 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCC/C=C\CCCCCC(=O)OC[C@@H](CO)O
7E9 P98005 300.4 Da LogP 3.36 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCC/C=C\CCCCCC(=O)OC(CO)CO
AZI P00396 42.0 Da LogP 0.87 TPSA 58.7 ✓ Ro5 Alert [N-]=[N+]=[N-]
CDL A0R0M4 1464.1 Da LogP 23.31 TPSA 242.6 3 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)([O-])OCC(…
CHD P00396 408.6 Da LogP 3.45 TPSA 98.0 ✓ Ro5 ✓ Clean C[C@H](CCC(=O)O)[C@H]1CC[C@@H]2[C@@]1([C@H](C[C…
CMO P00396 28.0 Da LogP -0.04 TPSA 19.9 ✓ Ro5 ✓ Clean [C-]#[O+]
CQX P00396 364.5 Da LogP 0.96 TPSA 108.6 ✓ Ro5 ✓ Clean CCCCCCCCCCOCCO[C@@H]1[C@H]([C@H]([C@@H]([C@H](O…
CUA P00396 127.1 Da LogP -0.01 TPSA 0.0 ✓ Ro5 ✓ Clean [Cu][Cu]
DCW P00396 224.3 Da LogP 2.95 TPSA 41.1 ✓ Ro5 ✓ Clean C1CCC(CC1)NC(=O)NC2CCCCC2
DMU P33517 482.6 Da LogP -1.23 TPSA 178.5 2 viol. ✓ Clean CCCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)C…
DXC P33517 392.6 Da LogP 4.48 TPSA 77.8 ✓ Ro5 ✓ Clean C[C@H](CCC(=O)O)[C@H]1CC[C@@H]2[C@@]1([C@H](C[C…
FES A0R0M4 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1
FME P00396 177.2 Da LogP -0.06 TPSA 66.4 ✓ Ro5 ✓ Clean CSCC[C@@H](C(=O)O)NC=O
HEO P0ABI8 838.9 Da LogP 8.07 TPSA 110.7 2 viol. ✓ Clean Cc1c2cc3[n+]4c(cc5c(c(c6n5[Fe]47n2c(c1CCC(=O)O)…
HQO P34956 259.3 Da LogP 3.69 TPSA 47.2 ✓ Ro5 Alert CCCCCCCc1cc(c2ccccc2[n+]1[O-])O
HTO P33517 148.2 Da LogP -0.11 TPSA 60.7 ✓ Ro5 ✓ Clean CCCC[C@H]([C@@H](CO)O)O
IHQ P34956 385.2 Da LogP 4.36 TPSA 42.2 ✓ Ro5 ✓ Clean CCCCCCCC1=C(C(=O)c2ccccc2N1O)I
LMU P33517 510.6 Da LogP -0.45 TPSA 178.5 3 viol. ✓ Clean CCCCCCCCCCCCO[C@@H]1[C@@H]([C@H]([C@@H]([C@H](O…
MQ7 P34956 649.0 Da LogP 14.10 TPSA 34.1 2 viol. Alert CC1=C(C(=O)c2ccccc2C1=O)C\C=C(/C)\CC\C=C(/C)\CC…
MQ9 A0R0M4 785.3 Da LogP 17.55 TPSA 34.1 2 viol. Alert CC1=C(C(=O)c2ccccc2C1=O)C\C=C(/C)\CC\C=C(/C)\CC…
O P00396 18.0 Da LogP -0.82 TPSA 31.5 ✓ Ro5 ✓ Clean O
OXY P00396 32.0 Da LogP 0.07 TPSA 34.1 ✓ Ro5 ✓ Clean O=O
PEK P00396 768.1 Da LogP 11.94 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@](=O)(O)OCCN…
PER P00396 32.0 Da LogP -2.38 TPSA 46.1 ✓ Ro5 ✓ Clean [O-][O-]
PGV P00396 749.0 Da LogP 10.45 TPSA 148.8 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@](=O)(O)OC[C@H…
PSC P00396 759.1 Da LogP 11.58 TPSA 108.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OCC[N…
TGL P00396 891.5 Da LogP 18.77 TPSA 78.9 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OCC(COC(=O)CCCCCCCCCCCCCC…
TRD P33517 184.4 Da LogP 5.32 TPSA 0.0 1 viol. ✓ Clean CCCCCCCCCCCCC
U9V P0ABI8 524.9 Da LogP 10.65 TPSA 52.6 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OCCOC(=O)CCCCCCCCCCCCCC
UQ8 P0ABI8 727.1 Da LogP 14.40 TPSA 52.6 2 viol. Alert CC1=C(C(=O)C(=C(C1=O)OC)OC)CC=C(C)CC\C=C(/C)\CC…

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.