Protein profile

KP13_03354

Regulator of nucleoside diphosphate kinase

Genome: KpKP13

Gene: rnk AHE45733.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GTV2
Export view
Amino acids 140
Annotations 5
Features 14
PDB binders 0
Druggability 0.654

Overview

Basic information about this protein and its source genome.

Accession
KP13_03354
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
rnk AHE45733.1
Status
annotated
Amino acids
140
Structure source
AlphaFold + ColabFold
GO
GO:0070063 Binding to an RNA polymerase molecule or complex. GO:0032784 Any process that modulates the frequency, rate or extent of transcription elongation, the extension of an RNA molecule after transcription initiation and promoter clearance by the addition of ribonucleotides catalyzed by a DNA-dependent RNA polymerase. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule. GO:0006354 The extension of an RNA molecule after transcription initiation and promoter clearance at a DNA-dependent RNA polymerase promoter by the addition of ribonucleotides catalyzed by an RNA polymerase.

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 (%)
50.0
DEG E-value
8.320000000000001e-36
Localization
Cytoplasmic
ColabFold pLDDT
93.03

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 0.654
Structure A0A0H3GTV2
Pocket Pocket 1
P2Rank
Structure A0A0H3GTV2
Pocket No pockets
ColabFold model
FPocket 0.417 · 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.

5 GO

Gene Ontology (GO)

5
  • GO:0070063 Binding to an RNA polymerase molecule or complex.
  • GO:0032784 Any process that modulates the frequency, rate or extent of transcription elongation, the extension of an RNA molecule after transcription initiation and promoter clearance by the addition of ribonucleotides catalyzed by a DNA-dependent RNA polymerase.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
  • GO:0006354 The extension of an RNA molecule after transcription initiation and promoter clearance at a DNA-dependent RNA polymerase promoter by the addition of ribonucleotides catalyzed by an RNA polymerase.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
5 47 Gene3D G3DSA:1.10.286.20 -
49 140 FunFam G3DSA:3.10.50.30:FF:000002 Regulator of nucleoside diphosphate kinase
53 130 SUPERFAMILY SSF54534 FKBP-like
5 140 Hamap MF_00954 Regulator of nucleoside diphosphate kinase [rnk].
5 140 InterPro IPR028625 Regulator of nucleoside diphosphate kinase
49 140 Gene3D G3DSA:3.10.50.30 -
49 140 InterPro IPR036953 Transcription elongation factor GreA/GreB, C-terminal domain superfamily
54 128 Pfam PF01272 Transcription elongation factor, GreA/GreB, C-term
54 128 InterPro IPR001437 Transcription elongation factor, GreA/GreB, C-terminal
5 48 FunFam G3DSA:1.10.286.20:FF:000002 Regulator of nucleoside diphosphate kinase
8 47 Pfam PF14760 Rnk N-terminus
8 47 InterPro IPR029462 Regulator of nucleoside diphosphate kinase, N-terminal domain
35 131 PANTHER PTHR30437 TRANSCRIPTION ELONGATION FACTOR GREA
35 131 InterPro IPR023459 Transcription elongation factor GreA/GreB family

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_A0A0H3GTV2
AlphaFold — — full sequence — Viewing
ColabFold KP13_03354
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 0.654
3 0.024
4 0.019
5 0.0