Protein profile

PA0965

crossover junction endodeoxyribonuclease RuvC

Genome: NC_002516.2

Gene: ruvC PA0965 Structure source: Experimental + AlphaFold UniProt Q51424
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Amino acids 174
Annotations 10
Features 27
PDB binders 0
Druggability 0.431

Overview

Basic information about this protein and its source genome.

Accession
PA0965
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
ruvC PA0965
Status
annotated
Amino acids
174
Structure source
Experimental + AlphaFold
EC
3.1.21.10
GO
GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0048476 An endodeoxyribonuclease complex that resolves the 4-way DNA intermediates of a Holliday junction into two separate duplex DNA molecules. Can be branch-migration associated. GO:0008821 Catalysis of the endonucleolytic cleavage at a junction such as a reciprocal single-stranded crossover between two homologous DNA duplexes (Holliday junction). GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0000287 Binding to a magnesium (Mg) ion. GO:0006310 Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
Y
Localization
Cytoplasmic

Selected Druggability evidence

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 0.431
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

9
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0048476 An endodeoxyribonuclease complex that resolves the 4-way DNA intermediates of a Holliday junction into two separate duplex DNA molecules. Can be branch-migration associated.
  • GO:0008821 Catalysis of the endonucleolytic cleavage at a junction such as a reciprocal single-stranded crossover between two homologous DNA duplexes (Holliday junction).
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0000287 Binding to a magnesium (Mg) ion.
  • GO:0006310 Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
  • GO:0006281 The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0004520 Catalysis of the cleavage of ester linkages within deoxyribonucleic acid by creating internal breaks.

Sequence Features

Domain/signature hits from InterPro and related databases.

27 records
Show feature table
Start End DB Term Name
4 150 Pfam PF02075 Crossover junction endodeoxyribonuclease RuvC
4 150 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
113 147 ProSitePatterns PS01321 Crossover junction endodeoxyribonuclease ruvC signature.
113 147 InterPro IPR020563 Crossover junction endodeoxyribonuclease RuvC, magnesium-binding site
3 156 SUPERFAMILY SSF53098 Ribonuclease H-like
3 156 InterPro IPR012337 Ribonuclease H-like superfamily
2 158 Gene3D G3DSA:3.30.420.10 -
2 158 InterPro IPR036397 Ribonuclease H superfamily
4 155 NCBIfam TIGR00228 crossover junction endodeoxyribonuclease RuvC
4 155 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
2 153 Hamap MF_00034 Crossover junction endodeoxyribonuclease RuvC [ruvC].
2 153 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
138 150 PRINTS PR00696 Crossover junction endodeoxyribonuclease RUVC signature
138 150 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
61 77 PRINTS PR00696 Crossover junction endodeoxyribonuclease RUVC signature
61 77 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
107 126 PRINTS PR00696 Crossover junction endodeoxyribonuclease RUVC signature
107 126 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
5 18 PRINTS PR00696 Crossover junction endodeoxyribonuclease RUVC signature
5 18 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
83 99 PRINTS PR00696 Crossover junction endodeoxyribonuclease RUVC signature
83 99 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
2 158 FunFam G3DSA:3.30.420.10:FF:000002 Crossover junction endodeoxyribonuclease RuvC
2 157 PANTHER PTHR30194 CROSSOVER JUNCTION ENDODEOXYRIBONUCLEASE RUVC
2 157 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC
4 153 CDD cd16962 RuvC
4 153 InterPro IPR002176 Crossover junction endodeoxyribonuclease RuvC

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

1 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 6LW3
X-ray 2.38 Å A,B
87.9% 1-153
PDBe RCSB PDBj File
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AlphaFold PA0965
AlphaFold — — 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 0.431

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 5.14 0.236
2 2.43 0.066