Protein profile

PA1317

cytochrome o ubiquinol oxidase subunit II

Genome: NC_002516.2

Gene: cyoA PA1317 Structure source: AlphaFold UniProt Q9I427
Amino acids 331
Annotations 9
Features 37
PDB binders 25
Druggability 0.976

Overview

Basic information about this protein and its source genome.

Accession
PA1317
Gene
cyoA PA1317
Status
annotated
Amino acids
331
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
Y
Localization
CytoplasmicMembrane

Selected Druggability evidence

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 0.976
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

9 GO

Gene Ontology (GO)

9
  • 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:0098803 Any protein complex that is part of a respiratory chain.
  • GO:0005507 Binding to a copper (Cu) ion.
  • GO:0009486 Catalysis of the reaction: 2 ubiquinol + O2 + 4 H+ = 2 ubiquinone + 2 H2O + 4 H+ [periplasmic space].
  • 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: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:0042773 The transfer of electrons through a series of electron donors and acceptors, generating energy that is ultimately used for synthesis of ATP.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0022900 A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors.

Sequence Features

Domain/signature hits from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
108 331 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 29 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 310 PIRSF PIRSF000292 Ubiqnol_oxid_II
1 310 InterPro IPR006333 Cytochrome o ubiquinol oxidase subunit II
119 278 SUPERFAMILY SSF49503 Cupredoxins
119 278 InterPro IPR008972 Cupredoxin
42 66 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
31 41 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
26 116 SUPERFAMILY SSF81464 Cytochrome c oxidase subunit II-like, transmembrane region
26 116 InterPro IPR036257 Cytochrome C oxidase subunit II, transmembrane domain superfamily
67 86 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
12 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
26 111 FunFam G3DSA:1.10.287.90:FF:000002 Ubiquinol oxidase subunit 2
26 111 Gene3D G3DSA:1.10.287.90 -
26 111 InterPro IPR036257 Cytochrome C oxidase subunit II, transmembrane domain superfamily
148 217 Pfam PF00116 Cytochrome C oxidase subunit II, periplasmic domain
148 217 InterPro IPR002429 Cytochrome c oxidase subunit II-like C-terminal
44 66 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
112 279 FunFam G3DSA:2.60.40.420:FF:000008 Ubiquinol oxidase subunit 2
15 237 NCBIfam TIGR01433 ubiquinol oxidase subunit II
15 237 InterPro IPR006333 Cytochrome o ubiquinol oxidase subunit II
237 282 Pfam PF06481 COX Aromatic Rich Motif
237 282 InterPro IPR010514 COX aromatic rich motif
123 235 ProSiteProfiles PS50857 Cytochrome oxidase subunit II copper A binding domain profile.
123 235 InterPro IPR002429 Cytochrome c oxidase subunit II-like C-terminal
20 117 ProSiteProfiles PS50999 Cytochrome oxidase subunit II transmembrane region profile.
20 117 InterPro IPR011759 Cytochrome C oxidase subunit II, transmembrane domain
23 239 PANTHER PTHR22888 CYTOCHROME C OXIDASE, SUBUNIT II
23 239 InterPro IPR045187 Cytochrome c/quinol oxidase subunit II
112 279 Gene3D G3DSA:2.60.40.420 -
112 279 InterPro IPR008972 Cupredoxin
1 24 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile.
1 11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
87 107 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
87 107 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
126 224 CDD cd04212 CuRO_UO_II
126 224 InterPro IPR034227 Ubiquinol oxidase subunit 2, cupredoxin domain

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

Loading 3D structure...

Legend High Medium Low

Structural evidence

0 + 1

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA1317
AlphaFold full sequence Viewing
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
3 0.976
4 0.228

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.

75 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 P0ABJ1 748.1 Da LogP 12.06 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)(O)OCCN)OC…
4AG Q5SLI2 568.9 Da LogP 10.40 TPSA 72.8 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@@H](CO)OC(=O)CCCCCCCCC…
5PL Q5SLI2 1233.7 Da LogP 15.13 TPSA 245.7 4 viol. ✓ Clean CCCCCCCCCCCCCCCCCCCNC(=O)[C@@H](CO[C@@H]1[C@@H]…
6PH P00410 592.8 Da LogP 8.95 TPSA 119.4 2 viol. ✓ Clean CCCCCCCCCCCCCCC(=O)O[C@H](COC(=O)CCCCCCCCCCCC)C…
7E8 Q5SLI2 300.4 Da LogP 3.36 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCC/C=C\CCCCCC(=O)OC[C@@H](CO)O
7E9 Q5SLI2 300.4 Da LogP 3.36 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCC/C=C\CCCCCC(=O)OC(CO)CO
7PH P00410 564.7 Da LogP 8.17 TPSA 119.4 2 viol. ✓ Clean CCCCCCCCCCCCCC(=O)O[C@H](COC(=O)CCCCCCCCCCC)COP…
8PE P00410 692.0 Da LogP 10.50 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OCC…
9PE P00410 593.8 Da LogP 7.77 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)O[C@H](COC(=O)CCCCCC)CO[P…
CDL P00410 1464.1 Da LogP 23.31 TPSA 242.6 3 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)([O-])OCC(…
CN3 P00410 834.9 Da LogP 7.02 TPSA 236.9 3 viol. ✓ Clean CCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OC[C@@H](C…
CN5 P00410 634.6 Da LogP 5.59 TPSA 184.3 3 viol. ✓ Clean CCCCCCCCCCCCCCC(=O)OCCCO[P@](=O)(O)OC[C@H](CO[P…
CUA P0ABJ1 127.1 Da LogP -0.01 TPSA 0.0 ✓ Ro5 ✓ Clean [Cu][Cu]
FES P00410 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1
HEO P0ABJ1 838.9 Da LogP 8.07 TPSA 110.7 2 viol. ✓ Clean Cc1c2cc3[n+]4c(cc5c(c(c6n5[Fe]47n2c(c1CCC(=O)O)…
LDA P08306 229.4 Da LogP 4.48 TPSA 23.1 ✓ Ro5 ✓ Clean CCCCCCCCCCCC[N+](C)(C)[O-]
LMT P08306 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…
PCF P00410 734.1 Da LogP 10.61 TPSA 111.2 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@](=O)([O-])OCC…
PEF P00410 692.0 Da LogP 10.50 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OCCN)…
PEO P08306 34.0 Da LogP 0.02 TPSA 40.5 ✓ Ro5 ✓ Clean OO
PER P08306 32.0 Da LogP -2.38 TPSA 46.1 ✓ Ro5 ✓ Clean [O-][O-]
PTY P00410 734.1 Da LogP 11.67 TPSA 134.4 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCCCC(=O)O[C@H](COC(=O)CCCCCCCCC…
U9V P0ABJ1 524.9 Da LogP 10.65 TPSA 52.6 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OCCOC(=O)CCCCCCCCCCCCCC
UQ6 P00410 592.9 Da LogP 11.56 TPSA 58.9 2 viol. ✓ Clean Cc1c(c(c(c(c1O)OC)OC)O)C\C=C(/C)\CC\C=C(/C)\CC\…
UQ8 P0ABJ1 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.