Protein profile

KP13_02935

DNA polymerase III subunit epsilon

Genome: KpKP13

Gene: AHE46207.1 dnaQ Structure source: AlphaFold + ColabFold UniProt A0A0H3GIQ4
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Amino acids 243
Annotations 9
Features 17
PDB binders 0
Druggability 0.68

Overview

Basic information about this protein and its source genome.

Accession
KP13_02935
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE46207.1 dnaQ
Status
annotated
Amino acids
243
Structure source
AlphaFold + ColabFold
EC
2.7.7.7
GO
GO:0003676 Binding to a nucleic acid. GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA. GO:0003887 Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0008408 Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' end.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
89.3
DEG E-value
3.41e-167
Localization
Cytoplasmic
ColabFold pLDDT
87.37

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 0.68
Structure A0A0H3GIQ4
Pocket Pocket 1
P2Rank 0.821
Structure A0A0H3GIQ4
Pocket Pocket 1
ColabFold model
FPocket 0.678 · Pocket 2
P2Rank 0.846 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 176 / 4744 genomes with a hit
Normalized 0.037

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0003676 Binding to a nucleic acid.
  • GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
  • GO:0003887 Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0008408 Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' end.
  • GO:0046872 Binding to a metal ion.
  • GO:0045004 Correction of replication errors by DNA polymerase using a 3'-5' exonuclease activity.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
1 191 Gene3D G3DSA:3.30.420.10 -
1 191 InterPro IPR036397 Ribonuclease H superfamily
3 189 FunFam G3DSA:3.30.420.10:FF:000012 DNA polymerase III subunit epsilon
6 225 NCBIfam TIGR00573 exonuclease, DNA polymerase III, epsilon subunit family
6 225 InterPro IPR006054 DNA polymerase III epsilon subunit, exonuclease domain
7 191 PANTHER PTHR30231 DNA POLYMERASE III SUBUNIT EPSILON
7 184 SMART SM00479 exoiiiendus
7 184 InterPro IPR013520 Exonuclease, RNase T/DNA polymerase III
8 179 CDD cd06131 DNA_pol_III_epsilon_Ecoli_like
8 179 InterPro IPR006309 DNA polymerase 3, epsilon subunit
9 175 Pfam PF00929 Exonuclease
9 175 InterPro IPR013520 Exonuclease, RNase T/DNA polymerase III
7 242 NCBIfam TIGR01406 DNA polymerase III subunit epsilon
7 242 InterPro IPR006309 DNA polymerase 3, epsilon subunit
7 184 SUPERFAMILY SSF53098 Ribonuclease H-like
7 184 InterPro IPR012337 Ribonuclease H-like superfamily
208 243 Gene3D G3DSA:3.20.20.140 -

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_A0A0H3GIQ4
AlphaFold — — full sequence — Viewing
ColabFold KP13_02935
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
1 0.68

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 15.36 0.752