Protein profile

VK055_4006

urease accessory protein ureD

Genome: KpATCC43816

Gene: AIK82553.1 ureD Structure source: Experimental + ColabFold UniProt A0A9Q6A135
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Amino acids 270
Annotations 3
Features 6
PDB binders 0
Druggability 0.385

Overview

Basic information about this protein and its source genome.

Accession
VK055_4006
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK82553.1 ureD
Status
annotated
Amino acids
270
Structure source
Experimental + ColabFold
GO
GO:0016151 Binding to a nickel (Ni) cation. GO:0006807 OBSOLETE. The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
96.02

Selected Druggability evidence

PDB experimental structure

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 0.385
Structure 8HCN
Pocket Pocket 5
P2Rank 0.524
Structure 8HCN
Pocket Pocket 1
ColabFold model
FPocket 0.857 · Pocket 3
P2Rank 0.71 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 35 / 4744 genomes with a hit
Normalized 0.007

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0016151 Binding to a nickel (Ni) cation.
  • GO:0006807 OBSOLETE. The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Sequence Features

Domain/signature hits from InterPro and related databases.

6 records
Show feature table
Start End DB Term Name
50 239 Pfam PF01774 UreD urease accessory protein
50 239 InterPro IPR002669 Urease accessory protein UreD
8 191 PANTHER PTHR33643 UREASE ACCESSORY PROTEIN D
8 191 InterPro IPR002669 Urease accessory protein UreD
9 254 Hamap MF_01384 Urease accessory protein UreD [ureD].
9 254 InterPro IPR002669 Urease accessory protein UreD

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...

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Structural evidence

1 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
PDB 8HCN
X-ray 20.00 Å - —
PDBe RCSB PDBj File
Viewing
ColabFold VK055_4006
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
45 0.924
3 0.821
47 0.8
7 0.672

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 21.0 0.864
2 16.33 0.776
3 14.14 0.713
4 13.01 0.671
5 12.75 0.661