Protein profile

KP13_31628

Ribosome maturation factor rimM

Genome: KpKP13

Gene: AHE43140.1 rimM Structure source: AlphaFold + ColabFold UniProt W8URB6
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Amino acids 182
Annotations 5
Features 19
PDB binders 0
Druggability 0.194

Overview

Basic information about this protein and its source genome.

Accession
KP13_31628
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE43140.1 rimM
Status
annotated
Amino acids
182
Structure source
AlphaFold + ColabFold
GO
GO:0043022 Binding to a ribosome. GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules. GO:0005840 An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0042274 A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a small ribosomal subunit; includes transport to the sites of protein synthesis.

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 (%)
93.956
DEG E-value
6.27e-129
Localization
Cytoplasmic
ColabFold pLDDT
85.78

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 0.194
Structure W8URB6
Pocket Pocket 4
P2Rank
Structure W8URB6
Pocket No pockets
ColabFold model
FPocket 0.068 · Pocket 10
P2Rank 0.038 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 132 / 4744 genomes with a hit
Normalized 0.028

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • GO:0043022 Binding to a ribosome.
  • GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
  • GO:0005840 An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0042274 A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a small ribosomal subunit; includes transport to the sites of protein synthesis.

Sequence Features

Domain/signature hits from InterPro and related databases.

19 records
Show feature table
Start End DB Term Name
101 182 FunFam G3DSA:2.30.30.240:FF:000001 Ribosome maturation factor RimM
14 182 NCBIfam TIGR02273 ribosome maturation factor RimM
14 182 InterPro IPR011961 16S rRNA processing protein RimM
4 100 FunFam G3DSA:2.40.30.60:FF:000001 Ribosome maturation factor RimM
13 182 Hamap MF_00014 Ribosome maturation factor RimM [rimM].
13 182 InterPro IPR011961 16S rRNA processing protein RimM
4 181 PANTHER PTHR33692 RIBOSOME MATURATION FACTOR RIMM
4 181 InterPro IPR011961 16S rRNA processing protein RimM
16 97 Pfam PF01782 RimM N-terminal domain
16 97 InterPro IPR002676 RimM, N-terminal
12 100 SUPERFAMILY SSF50447 Translation proteins
12 100 InterPro IPR009000 Translation protein, beta-barrel domain superfamily
101 182 Gene3D G3DSA:2.30.30.240 -
104 177 Pfam PF05239 PRC-barrel domain
104 177 InterPro IPR027275 PRC-barrel domain
4 100 Gene3D G3DSA:2.40.30.60 RimM
4 100 InterPro IPR036976 RimM, N-terminal domain superfamily
106 182 SUPERFAMILY SSF50346 PRC-barrel domain
106 182 InterPro IPR011033 PRC-barrel-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.

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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_W8URB6
AlphaFold — — full sequence — Viewing
ColabFold KP13_31628
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer