Protein profile

VK055_3419

NAD binding domain of 6-phosphogluconate dehydrogenase family protein

Genome: KpATCC43816

Gene: AIK81976.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3H4P8
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Amino acids 288
Annotations 3
Features 18
PDB binders 0
Druggability 0.731

Overview

Basic information about this protein and its source genome.

Accession
VK055_3419
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81976.1
Status
annotated
Amino acids
288
Structure source
AlphaFold + ColabFold
GO
GO:0050661 Binding to nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH. 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:0016616 Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
97.27

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 0.731
Structure A0A0H3H4P8
Pocket Pocket 8
P2Rank 0.207
Structure A0A0H3H4P8
Pocket Pocket 1
ColabFold model
FPocket 0.775 · Pocket 3
P2Rank 0.223 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 10 / 4744 genomes with a hit
Normalized 0.002

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0050661 Binding to nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
  • 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:0016616 Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP.

Sequence Features

Domain/signature hits from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
3 137 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase
3 137 InterPro IPR006115 6-phosphogluconate dehydrogenase, NADP-binding
11 17 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
189 260 Pfam PF09130 Domain of unknown function (DUF1932)
189 260 InterPro IPR015814 Phosphogluconate dehydrogenase, NAD-binding, putative, C-terminal
162 273 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like
162 273 InterPro IPR008927 6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily
1 2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
1 17 Phobius SIGNAL_PEPTIDE Signal peptide region
170 288 Gene3D G3DSA:1.10.1040.10 -
170 288 InterPro IPR013328 6-phosphogluconate dehydrogenase, domain 2
1 269 PIRSF PIRSF000103 HIBADH
1 269 InterPro IPR015815 3-hydroxyisobutyrate dehydrogenase-related
3 168 Gene3D G3DSA:3.40.50.720 -
3 10 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
18 288 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
2 156 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
2 156 InterPro IPR036291 NAD(P)-binding domain superfamily

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_A0A0H3H4P8
AlphaFold — — full sequence — Viewing
ColabFold VK055_3419
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
8 0.731
17 0.661
10 0.243

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 3.6 0.134
2 2.07 0.047
3 1.57 0.024