Protein profile

KP13_04749

Cobalamin synthase

Genome: KpKP13

Gene: AHE43712.1 cobS Structure source: AlphaFold + ColabFold UniProt A0A0H3GV60
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Amino acids 246
Annotations 5
Features 28
PDB binders 0
Druggability 0.489

Overview

Basic information about this protein and its source genome.

Accession
KP13_04749
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE43712.1 cobS
Status
annotated
Amino acids
246
Structure source
AlphaFold + ColabFold
EC
2.7.8.26
GO
GO:0008818 Catalysis of the reaction: adenosylcobinamide-GDP + alpha-ribazole-5'-phosphate = adenosylcobalamin-5'-phosphate + GMP. GO:0051073 Catalysis of the reaction: adenosylcobinamide-GDP + alpha-ribazole = GMP + adenosylcobalamin. GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins. 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
95.52

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 0.489
Structure A0A0H3GV60
Pocket Pocket 8
P2Rank 0.841
Structure A0A0H3GV60
Pocket Pocket 1
ColabFold model
FPocket 0.423 · Pocket 1
P2Rank 0.819 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 54 / 4744 genomes with a hit
Normalized 0.011

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:0008818 Catalysis of the reaction: adenosylcobinamide-GDP + alpha-ribazole-5'-phosphate = adenosylcobalamin-5'-phosphate + GMP.
  • GO:0051073 Catalysis of the reaction: adenosylcobinamide-GDP + alpha-ribazole = GMP + adenosylcobalamin.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • 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.

28 records
Show feature table
Start End DB Term Name
4 12 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
198 217 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 245 PANTHER PTHR34148 ADENOSYLCOBINAMIDE-GDP RIBAZOLETRANSFERASE
1 245 InterPro IPR003805 Adenosylcobinamide-GDP ribazoletransferase
109 131 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
219 246 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
159 169 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 24 Phobius SIGNAL_PEPTIDE Signal peptide region
8 243 Pfam PF02654 Cobalamin-5-phosphate synthase
8 243 InterPro IPR003805 Adenosylcobinamide-GDP ribazoletransferase
56 108 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 246 Hamap MF_00719 Adenosylcobinamide-GDP ribazoletransferase [cobS].
1 246 InterPro IPR003805 Adenosylcobinamide-GDP ribazoletransferase
201 218 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
196 200 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
33 55 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
139 158 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
13 24 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
1 245 NCBIfam TIGR00317 adenosylcobinamide-GDP ribazoletransferase
34 55 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
134 138 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
136 158 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
109 133 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
59 81 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
25 33 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
171 193 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
170 195 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.

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_A0A0H3GV60
AlphaFold — — full sequence — Viewing
ColabFold KP13_04749
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
8 0.489
2 0.434

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 18.14 0.816
2 4.4 0.185
3 1.9 0.038
4 1.17 0.01