Protein profile

PA0524

nitric oxide reductase subunit B

Genome: NC_002516.2

Gene: norB PA0524 Structure source: Experimental + AlphaFold UniProt Q59647
Amino acids 466
Annotations 10
Features 50
PDB binders 5
Druggability 0.943

Overview

Basic information about this protein and its source genome.

Accession
PA0524
Gene
norB PA0524
Status
annotated
Amino acids
466
Structure source
Experimental + AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
N
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 0.943
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Enzyme Commission (EC)

1

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: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:0046872 Binding to a metal ion.
  • GO:0016966 Catalysis of the reaction: H2O + 2 ferricytochrome c + nitrous oxide = 2 H+ + 2 ferrocytochrome c + 2 nitric oxide.
  • 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:0019333 The reduction of nitrate to dinitrogen by four reduction reactions: nitrate reduced to nitrite, then to nitric oxide, then to nitrous oxide, and finally to dinitrogen.
  • 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.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.

Sequence Features

Domain/signature hits from InterPro and related databases.

50 records
Show feature table
Start End DB Term Name
239 262 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
389 415 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
191 201 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
12 459 SUPERFAMILY SSF81442 Cytochrome c oxidase subunit I-like
12 459 InterPro IPR036927 Cytochrome c oxidase-like, subunit I superfamily
2 465 Gene3D G3DSA:1.20.210.10 -
2 465 InterPro IPR036927 Cytochrome c oxidase-like, subunit I superfamily
58 80 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
330 348 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
263 267 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
20 43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
116 141 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
173 453 PANTHER PTHR10422 CYTOCHROME C OXIDASE SUBUNIT 1
173 453 InterPro IPR000883 Cytochrome c oxidase subunit I
296 306 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
142 163 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
63 81 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
82 92 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
307 329 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
416 434 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
93 115 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
435 457 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 466 FunFam G3DSA:1.20.210.10:FF:000010 Nitric oxide reductase subunit B
202 227 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
349 368 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
15 446 Pfam PF00115 Cytochrome C and Quinol oxidase polypeptide I
15 446 InterPro IPR000883 Cytochrome c oxidase subunit I
19 466 ProSiteProfiles PS50855 Cytochrome oxidase subunit I profile.
19 466 InterPro IPR023616 Cytochrome c oxidase-like, subunit I domain
389 411 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
168 190 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
240 262 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
437 459 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
170 190 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
272 294 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
93 115 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
141 163 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
44 62 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
164 169 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
205 227 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
369 388 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
228 238 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
307 329 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
21 43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
458 466 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
349 368 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
268 295 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
203 259 ProSitePatterns PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature.
203 259 InterPro IPR023615 Cytochrome c oxidase, subunit I, copper-binding site

3D Structure

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

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Structural evidence

7 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 3WFD
X-ray 2.30 Å B
100.0% 1-466
Viewing
PDB 3WFE
X-ray 2.49 Å B
100.0% 1-466
Loaded
PDB 3WFC
X-ray 2.50 Å B
100.0% 1-466
Loaded
PDB 3O0R
X-ray 2.70 Å B
100.0% 1-466
Loaded
PDB 3WFB
X-ray 2.70 Å B
100.0% 1-466
Loaded
PDB 5GUW
X-ray 3.20 Å B,D
100.0% 1-466
Loaded
PDB 5GUX
X-ray 3.30 Å B
100.0% 1-466
Loaded
AlphaFold PA0524
AlphaFold 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
1 0.943
6 0.744

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
1 112.96 0.998
2 3.24 0.112
3 2.68 0.079
4 1.71 0.03
5 1.22 0.011

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.

55 records

Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in TPW, use Open crystal to inspect it in the structure viewer.

Show only:
Ligand Source crystal MW · LogP · TPSA Lipinski PAINS SMILES
10M 498.6 Da LogP -0.52 TPSA 169.3 2 viol. ✓ Clean CCCCCCCCCCS[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)C…
AXO 59.1 Da LogP 0.47 TPSA 32.6 ✓ Ro5 ✓ Clean C/C=N/O
CMO 28.0 Da LogP -0.04 TPSA 19.9 ✓ Ro5 ✓ Clean [C-]#[O+]
O 18.0 Da LogP -0.82 TPSA 31.5 ✓ Ro5 ✓ Clean O
XE 131.3 Da LogP 0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [Xe]

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.