Protein profile

VK055_3226

soluble pyridine nucleotide transhydrogenase

Genome: KpATCC43816

Gene: sthA AIK81786.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GLH6
Amino acids 466
Annotations 8
Features 35
PDB binders 13
Druggability 0.129

Overview

Basic information about this protein and its source genome.

Accession
VK055_3226
Gene
sthA AIK81786.1
Status
annotated
Amino acids
466
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
49.02
Human E-value
5.09e-07
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
96.567
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
94.44

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 0.129
Structure A0A0H3GLH6
Pocket Pocket 11
P2Rank 0.964
Structure A0A0H3GLH6
Pocket Pocket 1
ColabFold model
FPocket 0.428 · Pocket 3
P2Rank 0.958 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 137 / 4744 genomes with a hit
Normalized 0.029

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0003957 Catalysis of the reaction: NADPH + NAD+ = NADP+ + NADH.
  • 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:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0004148 Catalysis of the reaction: N(6)-[(R)-dihydrolipoyl]-L-lysyl-[protein] + NAD+ = N(6)-[(R)-lipoyl]-L-lysyl-[protein] + NADH + H+.
  • GO:0006103 The chemical reactions and pathways involving oxoglutarate, the dianion of 2-oxoglutaric acid. It is a key constituent of the TCA cycle and a key intermediate in amino-acid metabolism.
  • GO:0006739 The chemical reactions and pathways involving nicotinamide adenine dinucleotide phosphate (NADP+), a coenzyme that interconverts with its reduced form, NADPH, in many redox and biosynthetic reactions.

Sequence Features

Domain/signature hits from InterPro and related databases.

35 records
Show feature table
Start End DB Term Name
158 276 FunFam G3DSA:3.50.50.60:FF:000008 Soluble pyridine nucleotide transhydrogenase
158 276 Gene3D G3DSA:3.50.50.60 -
158 276 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
345 463 SUPERFAMILY SSF55424 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
345 463 InterPro IPR016156 FAD/NAD-linked reductase, dimerisation domain superfamily
346 457 Pfam PF02852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
346 457 InterPro IPR004099 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
9 28 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
139 157 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
178 196 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
262 278 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
291 313 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
1 322 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain
1 322 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
2 466 Hamap MF_00247 Soluble pyridine nucleotide transhydrogenase [sthA].
2 466 InterPro IPR022962 Soluble pyridine nucleotide transhydrogenase, gammaproteobacteria
7 333 Gene3D G3DSA:3.50.50.60 -
7 333 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
345 465 FunFam G3DSA:3.30.390.30:FF:000002 Soluble pyridine nucleotide transhydrogenase
1 463 PIRSF PIRSF000350 Hg-II_reductase_MerA
1 463 InterPro IPR001100 Pyridine nucleotide-disulphide oxidoreductase, class I
345 465 Gene3D G3DSA:3.30.390.30 -
345 465 InterPro IPR016156 FAD/NAD-linked reductase, dimerisation domain superfamily
4 460 PANTHER PTHR22912 DISULFIDE OXIDOREDUCTASE
342 363 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
8 30 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
41 56 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
306 313 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
407 422 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
142 151 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
178 203 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
263 277 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
432 452 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
7 326 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase
7 326 InterPro IPR023753 FAD/NAD(P)-binding 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

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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_A0A0H3GLH6
AlphaFold full sequence Viewing
ColabFold VK055_3226
ColabFold full sequence Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

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 21.02 0.865
2 10.36 0.557
3 7.26 0.378
4 3.42 0.123
5 2.23 0.054

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.

66 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
ACM P00390 59.1 Da LogP -0.51 TPSA 43.1 ✓ Ro5 ✓ Clean CC(=O)N
AUP P00390 368.4 Da LogP 6.67 TPSA 25.8 1 viol. ✓ Clean c1ccc(cc1)p2c(c3c(c2c4ccccn4)CCCC3)c5ccccn5
BTB P09622-2 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
ELI P00390 286.3 Da LogP 3.42 TPSA 71.4 ✓ Ro5 Alert CC1=C(C(=O)c2ccccc2C1=O)CCCCCC(=O)O
GCG P00390 723.9 Da LogP -4.58 TPSA 313.3 3 viol. ✓ Clean C(CCNC(=O)CNC(=O)[C@H](CS)NC(=O)CC[C@@H](C(=O)O…
GDS P00390 612.6 Da LogP -3.88 TPSA 317.6 3 viol. ✓ Clean C(CC(=O)N[C@@H](CSSC[C@@H](C(=O)NCC(=O)O)NC(=O)…
GSH P00390 307.3 Da LogP -2.21 TPSA 158.8 1 viol. ✓ Clean C(CC(=O)N[C@@H](CS)C(=O)NCC(=O)O)[C@@H](C(=O)O)N
HXP P00390 286.3 Da LogP 3.20 TPSA 87.0 ✓ Ro5 ✓ Clean c1cc2c(cc1O)Oc3cc(ccc3C2CCC(=O)O)O
MLT B4EEF2 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=O)O
NHE P09622-2 207.3 Da LogP 0.80 TPSA 66.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NCCS(=O)(=O)O
RGS P00390 612.6 Da LogP -3.88 TPSA 317.6 3 viol. ✓ Clean C(CNC(=O)[C@@H](CSSC[C@H](C(=O)NCC[C@@H](C(=O)O…
TS2 P00390 721.9 Da LogP -4.04 TPSA 313.3 3 viol. ✓ Clean C1CCNC(=O)CNC(=O)[C@H](CSSC[C@@H](C(=O)NCC(=O)N…
TS4 P00390 867.1 Da LogP -4.38 TPSA 377.3 3 viol. ✓ Clean C(CCNCCCNC(=O)CNC(=O)[C@H](CSSC[C@@H](C(=O)NCC(…

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.