Protein profile

KP13_02327

Putative cobalt-precorrin-6A synthase

Genome: KpKP13

Gene: AHE42897.1 cbiD Structure source: AlphaFold + ColabFold UniProt A0A0H3H282
Export view
Amino acids 379
Annotations 6
Features 14
PDB binders 0
Druggability 0.142

Overview

Basic information about this protein and its source genome.

Accession
KP13_02327
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42897.1 cbiD
Status
annotated
Amino acids
379
Structure source
AlphaFold + ColabFold
EC
2.1.1.195
GO
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:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0043780 Catalysis of the reaction: cobalt-precorrin 5B + S-adenosylmethionine = S-adenosylhomocysteine + cobalt-precorrin 6A. GO:0019251 The chemical reactions and pathways resulting in the formation of cobalamin (vitamin B12) in the absence of oxygen. GO:0032259 The process in which a methyl group is covalently attached to a molecule.

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
92.93

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 0.142
Structure A0A0H3H282
Pocket Pocket 28
P2Rank 0.835
Structure A0A0H3H282
Pocket Pocket 1
ColabFold model
FPocket 0.573 · Pocket 1
P2Rank 0.795 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 55 / 4744 genomes with a hit
Normalized 0.012

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • 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:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0043780 Catalysis of the reaction: cobalt-precorrin 5B + S-adenosylmethionine = S-adenosylhomocysteine + cobalt-precorrin 6A.
  • GO:0019251 The chemical reactions and pathways resulting in the formation of cobalamin (vitamin B12) in the absence of oxygen.
  • GO:0032259 The process in which a methyl group is covalently attached to a molecule.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
17 367 Hamap MF_00787 Cobalt-precorrin-5B C(1)-methyltransferase [cbiD].
17 367 InterPro IPR002748 Cobalt-precorrin-5B C(1)-methyltransferase CbiD
19 188 Gene3D G3DSA:3.30.2110.10 -
19 188 InterPro IPR036074 CbiD superfamily
13 374 PIRSF PIRSF026782 CbiD
13 374 InterPro IPR002748 Cobalt-precorrin-5B C(1)-methyltransferase CbiD
17 273 Pfam PF01888 CbiD
17 273 InterPro IPR002748 Cobalt-precorrin-5B C(1)-methyltransferase CbiD
17 365 NCBIfam TIGR00312 cobalt-precorrin-5B (C(1))-methyltransferase CbiD
17 365 InterPro IPR002748 Cobalt-precorrin-5B C(1)-methyltransferase CbiD
10 368 PANTHER PTHR35863 COBALT-PRECORRIN-5B C(1)-METHYLTRANSFERASE
10 368 InterPro IPR002748 Cobalt-precorrin-5B C(1)-methyltransferase CbiD
6 291 SUPERFAMILY SSF111342 CbiD-like
6 291 InterPro IPR036074 CbiD superfamily

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_A0A0H3H282
AlphaFold — — full sequence — Viewing
ColabFold KP13_02327
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

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 10.16 0.547
2 2.41 0.065
3 1.0 0.006