Protein profile

KP13_04320

putative ATP-dependent helicase dinG

Genome: KpKP13

Gene: AHE45554.1 dinG Structure source: AlphaFold + ColabFold UniProt A0A0H3GUG0
Export view
Amino acids 718
Annotations 15
Features 26
PDB binders 1
Druggability 0.659

Overview

Basic information about this protein and its source genome.

Accession
KP13_04320
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE45554.1 dinG
Status
annotated
Amino acids
718
Structure source
AlphaFold + ColabFold
EC
5.6.2.3
GO
GO:0004386 Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix. GO:0003676 Binding to a nucleic acid. GO:0003678 Unwinding of a DNA helix, driven by ATP hydrolysis. GO:0016818 Catalysis of the hydrolysis of any acid anhydride which contains phosphorus. GO:0006139 Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids. GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.

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
89.58

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 0.659
Structure A0A0H3GUG0
Pocket Pocket 28
P2Rank 0.938
Structure A0A0H3GUG0
Pocket Pocket 1
ColabFold model
FPocket 0.597 · Pocket 11
P2Rank 0.964 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 107 / 4744 genomes with a hit
Normalized 0.023

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 14 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

14
  • GO:0004386 Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0003678 Unwinding of a DNA helix, driven by ATP hydrolysis.
  • GO:0016818 Catalysis of the hydrolysis of any acid anhydride which contains phosphorus.
  • GO:0006139 Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0043139 Unwinding a DNA helix in the 5' to 3' direction, driven by ATP hydrolysis.
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.
  • GO:0033677 Unwinding of a DNA/RNA duplex, i.e. a double helix in which a strand of DNA pairs with a complementary strand of RNA, driven by ATP hydrolysis.
  • GO:0046872 Binding to a metal ion.
  • GO:0006281 The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
  • GO:0009432 An error-prone process for repairing damaged microbial DNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

26 records
Show feature table
Start End DB Term Name
531 688 Pfam PF13307 Helicase C-terminal domain
531 688 InterPro IPR006555 ATP-dependent helicase, C-terminal
17 294 ProSiteProfiles PS51193 Superfamilies 1 and 2 helicase ATP-binding type-2 domain profile.
17 294 InterPro IPR014013 Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-type
26 277 Gene3D G3DSA:3.40.50.300 -
26 277 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
27 689 PANTHER PTHR11472 DNA REPAIR DEAD HELICASE RAD3/XP-D SUBFAMILY MEMBER
27 689 InterPro IPR045028 Helicase superfamily 1/2, DinG/Rad3-like
503 687 FunFam G3DSA:3.40.50.300:FF:000685 ATP-dependent DNA helicase DinG
27 287 FunFam G3DSA:3.40.50.300:FF:000700 ATP-dependent DNA helicase DinG
197 264 Pfam PF06733 DEAD_2
197 264 InterPro IPR010614 RAD3-like helicase, DEAD
544 676 SMART SM00491 Cxpdneu3
544 676 InterPro IPR006555 ATP-dependent helicase, C-terminal
34 695 Hamap MF_02205 ATP-dependent DNA helicase DinG [dinG].
34 695 InterPro IPR039000 ATP-dependent DNA helicase DinG
504 687 Gene3D G3DSA:3.40.50.300 -
504 687 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
23 307 SMART SM00487 ultradead3
23 307 InterPro IPR014001 Helicase superfamily 1/2, ATP-binding domain
31 94 Pfam PF00270 DEAD/DEAH box helicase
31 94 InterPro IPR011545 DEAD/DEAH box helicase domain
46 670 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
46 670 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
18 294 SMART SM00488 deadxpd
18 294 InterPro IPR006554 Helicase-like, DEXD box c2 type

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 + 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_A0A0H3GUG0
AlphaFold — — full sequence — Viewing
ColabFold KP13_04320
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
28 0.659

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 12.81 0.663
2 7.67 0.405
3 4.31 0.178
4 4.12 0.166
5 3.76 0.145

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.

1 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
BEF
6FWS
P27296 66.0 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean [Be-](F)(F)F

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.