Protein profile

VK055_2739

eco57I restriction-modification methylase familyprotein

Genome: KpATCC43816

Gene: AIK81329.1 Structure source: ColabFold
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Amino acids 1228
Annotations 6
Features 16
PDB binders 0
Druggability 0.639

Overview

Basic information about this protein and its source genome.

Accession
VK055_2739
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81329.1
Status
annotated
Amino acids
1228
Structure source
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:0003676 Binding to a nucleic acid. GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0032259 The process in which a methyl group is covalently attached to a molecule. GO:0006304 The covalent alteration of one or more nucleotide sites in DNA, resulting in a change in its properties. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

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
92.24

Selected Druggability evidence

ColabFold / curated 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 0.639
Structure CB_VK055_2739
Pocket Pocket 77
P2Rank 0.785
Structure CB_VK055_2739
Pocket Pocket 1
ColabFold model
FPocket 0.639 · Pocket 77
P2Rank 0.785 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 4 / 4744 genomes with a hit
Normalized 0.001

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • 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:0003676 Binding to a nucleic acid.
  • GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0032259 The process in which a methyl group is covalently attached to a molecule.
  • GO:0006304 The covalent alteration of one or more nucleotide sites in DNA, resulting in a change in its properties.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

Sequence Features

Domain/signature hits from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
6 1213 NCBIfam NF033452 BREX-1 system adenine-specific DNA-methyltransferase PglX
306 381 Pfam PF20473 MmeI, DNA-methyltransferase domain
306 381 InterPro IPR046816 MmeI-like, DNA-methyltransferase domain
80 677 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
80 677 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
1 1085 PANTHER PTHR33841 DNA METHYLTRANSFERASE YEEA-RELATED
502 592 Pfam PF07669 Eco57I restriction-modification methylase
502 592 InterPro IPR011639 Type II restriction enzyme and methyltransferase RM.Eco57I-like
506 512 ProSitePatterns PS00092 N-6 Adenine-specific DNA methylases signature.
506 512 InterPro IPR002052 DNA methylase, N-6 adenine-specific, conserved site
536 560 PRINTS PR00507 N12 class N6 adenine-specific DNA methyltransferase signature
309 323 PRINTS PR00507 N12 class N6 adenine-specific DNA methyltransferase signature
503 515 PRINTS PR00507 N12 class N6 adenine-specific DNA methyltransferase signature
243 259 PRINTS PR00507 N12 class N6 adenine-specific DNA methyltransferase signature
209 658 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
209 658 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase 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

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Structural evidence

0 + 1

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

Entry Method Resolution Chain Coverage Links Status
ColabFold VK055_2739
ColabFold — — full sequence — Viewing
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
1 0.051
7 0.032
92 0.01
14 0.003

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 19.91 0.785
2 8.67 0.396
3 7.17 0.313
4 5.98 0.244
5 5.59 0.222