Protein target profile

PA1865

Fanconi-associated nuclease

Genome: NC_002516.2

Gene: fan1 PA1865 3D evidence: Experimental + AlphaFold DB model UniProt Q9I2N0
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Length 559
Pocket druggability 0.719
EC / GO 1 / 10
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

3 signals

Strengths

Strong predicted binding pocket FPocket selected-pocket score 0.72. This is a computational pocket signal, not binding validation. Structure available Experimental + AlphaFold DB model

Risks / watch

Human similarity Top human hit identity: 33.333%.

Missing evidence

No metabolic context No SBML/network-derived reaction evidence is loaded for this protein. No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.
How to read this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal TPW pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Overview

Basic information about this protein and its source genome.

Accession
PA1865
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
fan1 PA1865
Status
annotated
Amino acids
559
3D evidence
Experimental + AlphaFold DB model
EC
3.1.4.1
GO
GO:0008409 Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 5' end. GO:0017108 Catalysis of the cleavage of a 5' flap structure in DNA, but not other DNA structures; processes the 5' ends of Okazaki fragments in lagging strand DNA synthesis. GO:0070336 Binding to a flap structure in DNA. A DNA flap structure is one in which a single-stranded length of DNA or RNA protrudes from a double-stranded DNA molecule. GO:0000287 Binding to a magnesium (Mg) ion. GO:0030145 Binding to a manganese ion (Mn). GO:0004528 Catalysis of the sequential hydrolytic removal of 5'-nucleotides from the 3'-hydroxy termini of 3'-hydroxy-terminated oligonucleotides.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
33.333
Human E-value
2.08e-06
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected pocket evidence

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.719
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

MHEQYQAPLPVNSPALPEPFYYLHNFRAVLAWIGERYADLLDDQERAFIAAFAELPEASQALLVRMVMRKGTLFREGKLAYAEIGDTRAAVQPLLALGWVDAQPTLELAQLFGLLKKDELSQLFRDHLGRANLRKDALLERLQPLFPEARRLAEWQADFAEPVYELRCMALCDRLRLMYFGNLWQDWSEFVLADLGIYRYESVEFSADSRGFRLRADVDAYLHLFDCRQRFDLGEPLEELLAGLPGEPYANPWLEGRRVKLLFQFAQHCEKQRDFDLAQRLYRQSSHPGARLRAIRSLERGERFAEAHALAREASCAPESDAERQGLARLLPRLQGKLGLPRQARAAAPEIDRLDLCLAFPSEPCSVEWAVREHLEEPGCAVHYVENGLINSLFGLLCWEAIFAAIPGAFFHPFHSAPADLHSADFRQRRAALFEACLGRLEDGSYRDAIRCRYRDKFGLQSPFVYWELLGEELLEQALDCLPAAHLRAWFERLLEDIPGNRAGLPDLIQFWPAQRRYRMVEVKGPGDRLQDNQLRWLQFCREREMPVAVCYVRWHVDD

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 10 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

10
  • GO:0008409 Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 5' end.
  • GO:0017108 Catalysis of the cleavage of a 5' flap structure in DNA, but not other DNA structures; processes the 5' ends of Okazaki fragments in lagging strand DNA synthesis.
  • GO:0070336 Binding to a flap structure in DNA. A DNA flap structure is one in which a single-stranded length of DNA or RNA protrudes from a double-stranded DNA molecule.
  • GO:0000287 Binding to a magnesium (Mg) ion.
  • GO:0030145 Binding to a manganese ion (Mn).
  • GO:0004528 Catalysis of the sequential hydrolytic removal of 5'-nucleotides from the 3'-hydroxy termini of 3'-hydroxy-terminated oligonucleotides.
  • GO:0036297 Removal of a DNA interstrand crosslink (a covalent attachment of DNA bases on opposite strands of the DNA) and restoration of the DNA. DNA interstrand crosslinks occur when both strands of duplex DNA are covalently tethered together (e.g. by an exogenous or endogenous agent), thus preventing the strand unwinding necessary for essential DNA functions such as transcription and replication.
  • GO:0016788 Catalysis of the hydrolysis of any ester bond.
  • GO:0004518 Catalysis of the cleavage of ester linkages within nucleic acids.
  • GO:0003676 Binding to a nucleic acid.

Sequence Features

Domain/signature hits from InterPro and related databases.

11 records
Show feature table
Start End DB Term Name
484 559 Gene3D G3DSA:3.40.1350.10 -
484 559 InterPro IPR011856 tRNA endonuclease-like domain superfamily
443 555 Pfam PF08774 VRR-NUC domain
443 555 InterPro IPR014883 VRR-NUC domain
106 155 Pfam PF18081 Fanconi anemia-associated nuclease SAP domain
106 155 InterPro IPR040603 Fanconi-associated nuclease 1, SAP domain
17 232 PANTHER PTHR15749 FANCONI-ASSOCIATED NUCLEASE 1
17 232 InterPro IPR033315 Fanconi-associated nuclease 1-like
484 559 FunFam G3DSA:3.40.1350.10:FF:000024 Fanconi-associated nuclease
441 555 SMART SM00990 VRR_NUC_a_2
441 555 InterPro IPR014883 VRR-NUC domain

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

3D visualization script Full viewer

Loading 3D structure...

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Structural evidence

5 + 1

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
PDB 5Y7Q
X-ray 2.70 Å A
100.0% 1-559
PDBe RCSB PDBj File
Viewing
PDB 4R8A
X-ray 3.20 Å A,F
100.0% 1-559
PDBe RCSB PDBj File
Loaded
PDB 5Z6W
X-ray 3.20 Å A
100.0% 1-559
PDBe RCSB PDBj File
Loaded
PDB 5Y7G
X-ray 3.40 Å A,B,C
100.0% 1-559
PDBe RCSB PDBj File
Loaded
PDB 4R89
X-ray 4.00 Å A,E
100.0% 1-559
PDBe RCSB PDBj File
Loaded
AlphaFold DB PA1865
AlphaFold DB — — 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
1 0.719
2 0.66

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 8.41 0.449
2 2.97 0.096
3 2.8 0.087
4 0.57 0.0