Protein profile

KP13_01796

Ribonuclease HII

Genome: KpKP13

Gene: AHE46236.1 rnhB Structure source: AlphaFold + ColabFold UniProt A0A0H3GJP5
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Amino acids 199
Annotations 9
Features 15
PDB binders 0
Druggability 0.612

Overview

Basic information about this protein and its source genome.

Accession
KP13_01796
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE46236.1 rnhB
Status
annotated
Amino acids
199
Structure source
AlphaFold + ColabFold
EC
3.1.26.4
GO
GO:0003676 Binding to a nucleic acid. GO:0004523 Catalysis of the endonucleolytic cleavage of RNA in RNA-DNA hybrids to 5'-phosphomonoesters. GO:0003723 Binding to an RNA molecule or a portion thereof. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0032299 A protein complex that possesses ribonuclease H activity, in which the catalytic subunit is a member of the RNase H2 (or HII) class. For example, in Saccharomyces the complex contains Rnh201p, Rnh202p and Rnh203p. GO:0030145 Binding to a manganese ion (Mn).

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 (%)
89.394
DEG E-value
2.81e-131
Localization
Cytoplasmic
ColabFold pLDDT
95.12

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 0.612
Structure A0A0H3GJP5
Pocket Pocket 6
P2Rank 0.292
Structure A0A0H3GJP5
Pocket Pocket 1
ColabFold model
FPocket 0.922 · Pocket 1
P2Rank 0.332 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 1072 / 4744 genomes with a hit
Normalized 0.226

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:0004523 Catalysis of the endonucleolytic cleavage of RNA in RNA-DNA hybrids to 5'-phosphomonoesters.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0032299 A protein complex that possesses ribonuclease H activity, in which the catalytic subunit is a member of the RNase H2 (or HII) class. For example, in Saccharomyces the complex contains Rnh201p, Rnh202p and Rnh203p.
  • GO:0030145 Binding to a manganese ion (Mn).
  • GO:0043137 Removal of the Okazaki RNA primer from the lagging strand of replicating DNA, by a combination of the actions of DNA polymerase, DNA helicase and an endonuclease.
  • GO:0006298 A system for the correction of errors in which an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
11 190 Hamap MF_00052_B Ribonuclease HII [rnhB].
11 190 InterPro IPR022898 Ribonuclease HII
9 194 PANTHER PTHR10954 RIBONUCLEASE H2 SUBUNIT A
9 194 InterPro IPR001352 Ribonuclease HII/HIII
1 197 FunFam G3DSA:3.30.420.10:FF:000006 Ribonuclease HII
13 189 CDD cd07182 RNase_HII_bacteria_HII_like
13 189 InterPro IPR022898 Ribonuclease HII
1 198 Gene3D G3DSA:3.30.420.10 -
1 198 InterPro IPR036397 Ribonuclease H superfamily
10 199 ProSiteProfiles PS51975 Ribonuclease (RNase) H type-2 domain profile.
10 199 InterPro IPR024567 Ribonuclease HII/HIII domain
13 188 Pfam PF01351 Ribonuclease HII
13 188 InterPro IPR024567 Ribonuclease HII/HIII domain
3 195 SUPERFAMILY SSF53098 Ribonuclease H-like
3 195 InterPro IPR012337 Ribonuclease H-like 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_A0A0H3GJP5
AlphaFold — — full sequence — Viewing
ColabFold KP13_01796
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
6 0.612
2 0.475

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 4.18 0.17