Protein profile

KP13_05393

Excinuclease cho

Genome: KpKP13

Gene: cho AHE45038.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GN81
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Amino acids 287
Annotations 5
Features 12
PDB binders 0
Druggability 0.419

Overview

Basic information about this protein and its source genome.

Accession
KP13_05393
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
cho AHE45038.1
Status
annotated
Amino acids
287
Structure source
AlphaFold + ColabFold
GO
GO:0006289 A DNA repair process in which a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts). GO:0009380 Any of the protein complexes formed by the UvrABC excinuclease system, which carries out nucleotide excision repair. Three different complexes are formed by the 3 proteins as they proceed through the excision repair process. First a complex consisting of two A subunits and two B subunits bind DNA and unwind it around the damaged site. Then, the A subunits disassociate leaving behind a stable complex between B subunits and DNA. Now, subunit C binds to this B+DNA complex and causes subunit B to nick the DNA on one side of the complex while subunit C nicks the DNA on the other side of the complex. DNA polymerase I and DNA ligase can then repair the resulting gap. GO:0004519 Catalysis of the cleavage of ester linkages within nucleic acids by creating internal breaks. GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. GO:0009432 An error-prone process for repairing damaged microbial DNA.

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 (%)
75.175
DEG E-value
7.88e-160
Localization
Cytoplasmic
ColabFold pLDDT
89.97

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 0.419
Structure A0A0H3GN81
Pocket Pocket 6
P2Rank 0.056
Structure A0A0H3GN81
Pocket Pocket 1
ColabFold model
FPocket 0.456 · Pocket 3
P2Rank 0.033 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 75 / 4744 genomes with a hit
Normalized 0.016

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • GO:0006289 A DNA repair process in which a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts).
  • GO:0009380 Any of the protein complexes formed by the UvrABC excinuclease system, which carries out nucleotide excision repair. Three different complexes are formed by the 3 proteins as they proceed through the excision repair process. First a complex consisting of two A subunits and two B subunits bind DNA and unwind it around the damaged site. Then, the A subunits disassociate leaving behind a stable complex between B subunits and DNA. Now, subunit C binds to this B+DNA complex and causes subunit B to nick the DNA on one side of the complex while subunit C nicks the DNA on the other side of the complex. DNA polymerase I and DNA ligase can then repair the resulting gap.
  • GO:0004519 Catalysis of the cleavage of ester linkages within nucleic acids by creating internal breaks.
  • GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
  • GO:0009432 An error-prone process for repairing damaged microbial DNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

12 records
Show feature table
Start End DB Term Name
34 112 SMART SM00465 uri_9
34 112 InterPro IPR000305 GIY-YIG endonuclease
21 116 FunFam G3DSA:3.40.1440.10:FF:000004 UV-repair endonuclease Cho
33 108 ProSiteProfiles PS50164 GIY-YIG domain profile.
33 108 InterPro IPR000305 GIY-YIG endonuclease
31 108 CDD cd10434 GIY-YIG_UvrC_Cho
31 108 InterPro IPR047296 UvrC/Cho-like, GIY-YIG domain
21 116 Gene3D G3DSA:3.40.1440.10 -
21 116 InterPro IPR035901 GIY-YIG endonuclease superfamily
18 256 PANTHER PTHR30562 UVRC/OXIDOREDUCTASE
34 111 SUPERFAMILY SSF82771 GIY-YIG endonuclease
34 111 InterPro IPR035901 GIY-YIG endonuclease 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 + 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_A0A0H3GN81
AlphaFold — — full sequence — Viewing
ColabFold KP13_05393
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
6 0.419
1 0.236

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 1.98 0.042
2 0.72 0.002