Protein profile

KP13_02602

Protein recA

Genome: KpKP13

Gene: AHE43063.1 recA Structure source: AlphaFold + ColabFold UniProt A0A0H3GS46
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Amino acids 352
Annotations 12
Features 37
PDB binders 6
Druggability 0.493

Overview

Basic information about this protein and its source genome.

Accession
KP13_02602
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE43063.1 recA
Status
annotated
Amino acids
352
Structure source
AlphaFold + ColabFold
GO
GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient. GO:0140664 A molecule that recognises toxic DNA structures, and initiates a signaling response, driven by ATP hydrolysis. 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:0006259 Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. GO:0003697 Binding to single-stranded DNA. GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
27.149
Human E-value
8.97e-10
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
95.184
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
91.71

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 0.493
Structure A0A0H3GS46
Pocket Pocket 10
P2Rank 0.513
Structure A0A0H3GS46
Pocket Pocket 1
ColabFold model
FPocket 0.322 · Pocket 4
P2Rank 0.461 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 4179 / 4744 genomes with a hit
Normalized 0.881

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

12 GO

Gene Ontology (GO)

12
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.
  • GO:0140664 A molecule that recognises toxic DNA structures, and initiates a signaling response, driven by ATP hydrolysis.
  • 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:0006259 Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
  • GO:0003697 Binding to single-stranded DNA.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0008094 Catalytic activity that acts to modify DNA, driven by ATP hydrolysis.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0003684 Binding to damaged DNA.
  • 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:0009432 An error-prone process for repairing damaged microbial DNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
35 332 FunFam G3DSA:3.40.50.300:FF:000087 Recombinase RecA
6 326 NCBIfam TIGR02012 recombinase RecA
6 326 InterPro IPR013765 DNA recombination and repair protein RecA
59 230 SMART SM00382 AAA_5
59 230 InterPro IPR003593 AAA+ ATPase domain
7 331 Hamap MF_00268 Protein RecA [recA].
7 331 InterPro IPR013765 DNA recombination and repair protein RecA
272 327 SUPERFAMILY SSF54752 RecA protein, C-terminal domain
272 327 InterPro IPR023400 DNA recombination and repair protein RecA, C-terminal
37 271 CDD cd00983 RecA
37 271 InterPro IPR013765 DNA recombination and repair protein RecA
129 158 PRINTS PR00142 RecA protein signature
129 158 InterPro IPR013765 DNA recombination and repair protein RecA
299 316 PRINTS PR00142 RecA protein signature
299 316 InterPro IPR013765 DNA recombination and repair protein RecA
95 124 PRINTS PR00142 RecA protein signature
95 124 InterPro IPR013765 DNA recombination and repair protein RecA
167 196 PRINTS PR00142 RecA protein signature
167 196 InterPro IPR013765 DNA recombination and repair protein RecA
212 240 PRINTS PR00142 RecA protein signature
212 240 InterPro IPR013765 DNA recombination and repair protein RecA
245 274 PRINTS PR00142 RecA protein signature
245 274 InterPro IPR013765 DNA recombination and repair protein RecA
9 270 Pfam PF00154 recA bacterial DNA recombination protein
9 270 InterPro IPR013765 DNA recombination and repair protein RecA
215 223 ProSitePatterns PS00321 recA signature.
215 223 InterPro IPR020584 DNA recombination/repair protein RecA, conserved site
5 335 PANTHER PTHR45900 RECA
5 335 InterPro IPR013765 DNA recombination and repair protein RecA
37 196 ProSiteProfiles PS50162 RecA family profile 1.
37 196 InterPro IPR020588 DNA recombination and repair protein RecA-like, ATP-binding domain
201 274 ProSiteProfiles PS50163 RecA family profile 2.
201 274 InterPro IPR020587 DNA recombination and repair protein RecA, monomer-monomer interface
35 336 Gene3D G3DSA:3.40.50.300 -
35 336 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
6 269 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
6 269 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase

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_A0A0H3GS46
AlphaFold — — full sequence — Viewing
ColabFold KP13_02602
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
10 0.493
24 0.156
1 0.044
2 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 11.12 0.513
2 4.83 0.177
3 4.36 0.15
4 2.49 0.056
5 1.35 0.013

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

56 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
AGS
1XP8
P42443 523.2 Da LogP -1.51 TPSA 262.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ALF
3CMT
P0A7G6 103.0 Da LogP 1.30 TPSA 0.0 ✓ Ro5 ✓ Clean F[Al-](F)(F)F
ANP
1XMS
P0A7G6 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
DTP
1MO6
P9WHJ3 491.2 Da LogP -0.60 TPSA 258.9 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3C[C@@H]([C@H](O3)CO[P@]…
FLC
4PPF
P9WHJ3 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
PE4
2ZRJ
Q59560 354.4 Da LogP 0.11 TPSA 84.8 ✓ Ro5 ✓ Clean CCOCCOCCOCCOCCOCCOCCOCCO

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.