Protein profile

KP13_02191

tRNA-modifying protein

Genome: KpKP13

Gene: AHE42760.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GXB9
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Amino acids 327
Annotations 5
Features 17
PDB binders 0
Druggability 0.253

Overview

Basic information about this protein and its source genome.

Accession
KP13_02191
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42760.1
Status
annotated
Amino acids
327
Structure source
AlphaFold + ColabFold
GO
GO:0009451 The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically. GO:0005542 Binding to folic acid, pteroylglutamic acid. Folic acid is widely distributed as a member of the vitamin B complex and is essential for the synthesis of purine and pyrimidines. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0016226 The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster. GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.

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 (%)
82.515
DEG E-value
0.0
Localization
Unknown
ColabFold pLDDT
96.41

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 0.253
Structure A0A0H3GXB9
Pocket Pocket 10
P2Rank 0.37
Structure A0A0H3GXB9
Pocket Pocket 1
ColabFold model
FPocket 0.405 · Pocket 12
P2Rank 0.403 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 112 / 4744 genomes with a hit
Normalized 0.024

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:0009451 The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically.
  • GO:0005542 Binding to folic acid, pteroylglutamic acid. Folic acid is widely distributed as a member of the vitamin B complex and is essential for the synthesis of purine and pyrimidines.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0016226 The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
  • GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
8 242 SUPERFAMILY SSF103025 Folate-binding domain
1 321 Hamap MF_01175 tRNA-modifying protein YgfZ [ygfZ].
1 321 InterPro IPR023758 tRNA-modifying protein YgfZ
27 113 FunFam G3DSA:3.30.70.1400:FF:000002 tRNA-modifying protein YgfZ
187 252 NCBIfam TIGR03317 folate-binding protein YgfZ
187 252 InterPro IPR017703 YgfZ/GcvT conserved site
12 313 PANTHER PTHR22602 UNCHARACTERIZED
12 313 InterPro IPR045179 YgfZ/GcvT
197 318 Gene3D G3DSA:2.40.30.160 -
197 318 FunFam G3DSA:2.40.30.160:FF:000001 tRNA-modifying protein YgfZ
31 135 Pfam PF01571 Aminomethyltransferase folate-binding domain
31 135 InterPro IPR006222 Aminomethyltransferase, folate-binding domain
27 113 Gene3D G3DSA:3.30.70.1400 -
111 194 FunFam G3DSA:3.30.70.1630:FF:000001 tRNA-modifying protein YgfZ
24 194 Gene3D G3DSA:3.30.70.1630 -
244 325 SUPERFAMILY SSF101790 Aminomethyltransferase beta-barrel domain
244 325 InterPro IPR029043 Glycine cleavage T-protein/YgfZ, C-terminal

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_A0A0H3GXB9
AlphaFold — — full sequence — Viewing
ColabFold KP13_02191
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
10 0.253

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 4.97 0.225
2 3.62 0.136
3 2.03 0.044