Protein profile

PA3344

ATP-dependent DNA helicase RecQ

Genome: NC_002516.2

Gene: PA3344 recQ Structure source: AlphaFold UniProt Q9HYQ1
Amino acids 712
Annotations 20
Features 47
PDB binders 3
Druggability 0.505

Overview

Basic information about this protein and its source genome.

Accession
PA3344
Gene
PA3344 recQ
Status
annotated
Amino acids
712
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
48.936
Human E-value
6.46e-07
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 0.505
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 19 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

19
  • GO:0043590 The region of a bacterial cell to which the DNA is confined.
  • GO:0005694 A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0030894 A multi-component enzymatic machine at the replication fork which mediates DNA replication. Includes DNA primase, one or more DNA polymerases, DNA helicases, and other proteins.
  • GO:0043138 Unwinding a DNA helix in the direction 5' to 3', driven by ATP hydrolysis.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0009378 Unwinding a DNA helix of DNA containing four-way junctions, including Holliday junctions, driven by ATP hydrolysis.
  • GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
  • GO:0046872 Binding to a metal 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:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
  • GO:0009432 An error-prone process for repairing damaged microbial DNA.
  • GO:0000166 Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
  • GO:0003678 Unwinding of a DNA helix, driven by ATP hydrolysis.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0004386 Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix.
  • GO:0044237 OBSOLETE. The chemical reactions and pathways by which individual cells transform chemical substances.

Sequence Features

Domain/signature hits from InterPro and related databases.

47 records
Show feature table
Start End DB Term Name
8 455 NCBIfam TIGR00614 RecQ family ATP-dependent DNA helicase
8 455 InterPro IPR004589 DNA helicase, ATP-dependent, RecQ type
333 515 FunFam G3DSA:1.10.10.10:FF:000175 ATP-dependent DNA helicase RecQ
528 608 SMART SM00341 hrdc7
528 608 InterPro IPR002121 HRDC domain
219 322 Pfam PF00271 Helicase conserved C-terminal domain
219 322 InterPro IPR001650 Helicase, C-terminal
6 201 CDD cd17920 DEXHc_RecQ
335 396 Pfam PF16124 RecQ zinc-binding
335 396 InterPro IPR032284 ATP-dependent DNA helicase RecQ, zinc-binding domain
200 444 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
200 444 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
26 194 ProSiteProfiles PS51192 Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile.
26 194 InterPro IPR014001 Helicase superfamily 1/2, ATP-binding domain
404 507 SMART SM00956 RQC_2
404 507 InterPro IPR018982 RQC domain
522 602 Gene3D G3DSA:1.10.150.80 HRDC domain
522 602 InterPro IPR044876 HRDC domain superfamily
201 332 Gene3D G3DSA:3.40.50.300 -
201 332 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
215 364 ProSiteProfiles PS51194 Superfamilies 1 and 2 helicase C-terminal domain profile.
215 364 InterPro IPR001650 Helicase, C-terminal
401 510 Pfam PF09382 RQC domain
401 510 InterPro IPR018982 RQC domain
21 180 Pfam PF00270 DEAD/DEAH box helicase
21 180 InterPro IPR011545 DEAD/DEAH box helicase domain
202 332 FunFam G3DSA:3.40.50.300:FF:000156 ATP-dependent DNA helicase recQ
7 599 NCBIfam TIGR01389 DNA helicase RecQ
7 599 InterPro IPR006293 DNA helicase, ATP-dependent, RecQ type, bacterial
202 332 CDD cd18794 SF2_C_RecQ
1 201 FunFam G3DSA:3.40.50.300:FF:000296 ATP-dependent DNA helicase RecQ
1 200 Gene3D G3DSA:3.40.50.300 -
1 200 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
333 515 Gene3D G3DSA:1.10.10.10 -
333 515 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
528 608 ProSiteProfiles PS50967 HRDC domain profile.
242 323 SMART SM00490 helicmild6
242 323 InterPro IPR001650 Helicase, C-terminal
3 189 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
3 189 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
5 610 PANTHER PTHR13710 DNA HELICASE RECQ FAMILY MEMBER
533 598 Pfam PF00570 HRDC domain
533 598 InterPro IPR002121 HRDC domain
14 210 SMART SM00487 ultradead3
14 210 InterPro IPR014001 Helicase superfamily 1/2, ATP-binding domain
527 602 SUPERFAMILY SSF47819 HRDC-like
527 602 InterPro IPR010997 HRDC-like superfamily

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

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA3344
AlphaFold 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
3 0.505
7 0.312
2 0.209

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.

77 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
6SV O94762 226.3 Da LogP 1.80 TPSA 50.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NC(=O)NC[C@H]2CCCO2
AGS P15043 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)…
EU3 Q14191 152.0 Da LogP 0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [Eu+3]

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.