Protein profile

KP13_02324

Cobyrinic acid A,C-diamide synthase

Genome: KpKP13

Gene: cbiA AHE42894.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GWZ7
Export view
Amino acids 458
Annotations 5
Features 24
PDB binders 0
Druggability 0.906

Overview

Basic information about this protein and its source genome.

Accession
KP13_02324
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
cbiA AHE42894.1
Status
annotated
Amino acids
458
Structure source
AlphaFold + ColabFold
EC
6.3.5.11
GO
GO:0042242 Catalysis of the conversion of cobyrinic acid to cobyrinic acid a,c-diamide via the intermediate formation of cobyrinic acid c-monoamide. 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:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator. 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.

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
CytoplasmicMembrane
ColabFold pLDDT
95.13

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 0.906
Structure A0A0H3GWZ7
Pocket Pocket 3
P2Rank 0.965
Structure A0A0H3GWZ7
Pocket Pocket 1
ColabFold model
FPocket 0.87 · Pocket 11
P2Rank 0.966 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 46 / 4744 genomes with a hit
Normalized 0.01

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0042242 Catalysis of the conversion of cobyrinic acid to cobyrinic acid a,c-diamide via the intermediate formation of cobyrinic acid c-monoamide.
  • 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:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • 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.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
5 197 CDD cd05388 CobB_N
1 16 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile.
4 444 Hamap MF_00027 Hydrogenobyrinate a,c-diamide synthase [cobB].
4 444 InterPro IPR004484 Cobyrinic acid a,c-diamide synthase CbiA
3 43 Gene3D G3DSA:3.40.50.300 -
3 43 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
46 191 Gene3D G3DSA:3.40.50.300 -
46 191 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
252 453 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like
252 453 InterPro IPR029062 Class I glutamine amidotransferase-like
259 457 Gene3D G3DSA:3.40.50.880 -
259 457 InterPro IPR029062 Class I glutamine amidotransferase-like
5 200 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
5 200 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
252 443 Pfam PF07685 CobB/CobQ-like glutamine amidotransferase domain
252 443 InterPro IPR011698 CobB/CobQ-like glutamine amidotransferase
251 445 ProSiteProfiles PS51274 CobBQ-type GATase domain profile.
8 453 NCBIfam TIGR00379 hydrogenobyrinic acid a,c-diamide synthase (glutamine-hydrolyzing)
8 453 InterPro IPR004484 Cobyrinic acid a,c-diamide synthase CbiA
8 193 Pfam PF01656 CobQ/CobB/MinD/ParA nucleotide binding domain
8 193 InterPro IPR002586 CobQ/CobB/MinD/ParA nucleotide binding domain
252 451 CDD cd03130 GATase1_CobB
6 454 PANTHER PTHR43873 COBYRINATE A,C-DIAMIDE SYNTHASE
6 454 InterPro IPR004484 Cobyrinic acid a,c-diamide synthase CbiA

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_A0A0H3GWZ7
AlphaFold — — full sequence — Viewing
ColabFold KP13_02324
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
3 0.906

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 31.54 0.939
2 1.97 0.041
3 1.89 0.038
4 0.69 0.001