Protein profile

KP13_02340

Cobyric acid synthase

Genome: KpKP13

Gene: cobQ AHE42910.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GXK7
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Amino acids 507
Annotations 3
Features 22
PDB binders 0
Druggability 0.788

Overview

Basic information about this protein and its source genome.

Accession
KP13_02340
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
cobQ AHE42910.1
Status
annotated
Amino acids
507
Structure source
AlphaFold + ColabFold
GO
GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. GO:0009236 The chemical reactions and pathways resulting in the formation of cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom. GO:0015420 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: vitamin B12(out) + ATP + H2O = ADP + an vitamin B12(in) + H+ + phosphate. Vitamin B12 is alkylcob(III)alamin.

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 (%)
43.487
DEG E-value
2.38e-127
Localization
Cytoplasmic
ColabFold pLDDT
92.9

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 0.788
Structure A0A0H3GXK7
Pocket Pocket 2
P2Rank 0.868
Structure A0A0H3GXK7
Pocket Pocket 1
ColabFold model
FPocket 0.904 · Pocket 1
P2Rank 0.909 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 214 / 4744 genomes with a hit
Normalized 0.045

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:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0009236 The chemical reactions and pathways resulting in the formation of cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom.
  • GO:0015420 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: vitamin B12(out) + ATP + H2O = ADP + an vitamin B12(in) + H+ + phosphate. Vitamin B12 is alkylcob(III)alamin.

Sequence Features

Domain/signature hits from InterPro and related databases.

22 records
Show feature table
Start End DB Term Name
253 462 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile.
5 493 NCBIfam TIGR00313 cobyric acid synthase CobQ
5 493 InterPro IPR004459 Cobyric acid synthase CobQ
1 500 PANTHER PTHR21343 DETHIOBIOTIN SYNTHETASE
5 228 Pfam PF13500 AAA domain
254 456 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like
254 456 InterPro IPR029062 Class I glutamine amidotransferase-like
1 234 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
1 234 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
251 448 ProSiteProfiles PS51274 CobBQ-type GATase domain profile.
253 447 Pfam PF07685 CobB/CobQ-like glutamine amidotransferase domain
253 447 InterPro IPR011698 CobB/CobQ-like glutamine amidotransferase
4 237 Gene3D G3DSA:3.40.50.300 -
4 237 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
254 453 CDD cd01750 GATase1_CobQ
254 453 InterPro IPR033949 Cobyric acid synthase, glutamine amidotransferase type 1
251 396 Gene3D G3DSA:3.40.50.880 -
251 396 InterPro IPR029062 Class I glutamine amidotransferase-like
4 225 CDD cd05389 CobQ_N
4 225 InterPro IPR047045 Cobyric acid synthase, N-terminal domain
1 502 Hamap MF_00028 Cobyric acid synthase [cobQ].
1 502 InterPro IPR004459 Cobyric acid synthase CobQ

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_A0A0H3GXK7
AlphaFold — — full sequence — Viewing
ColabFold KP13_02340
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
2 0.788
37 0.349
1 0.293

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 14.07 0.71
2 6.92 0.357
3 2.66 0.078
4 2.31 0.059
5 1.48 0.021