Protein profile

PA4280

biotin--protein ligase

Genome: NC_002516.2

Gene: PA4280 birA Structure source: AlphaFold UniProt Q9HWC0
Amino acids 312
Annotations 7
Features 24
PDB binders 13
Druggability 0.633

Overview

Basic information about this protein and its source genome.

Accession
PA4280
Gene
PA4280 birA
Status
annotated
Amino acids
312
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
26.852
Human E-value
7.11e-08
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 0.633
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0004077 Catalysis of the reaction: ATP + biotin + L-lysyl-[protein] = AMP + diphosphate + H+ + N(6)-biotinyl-L-lysyl-[protein].
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0036211 The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
1 59 Gene3D G3DSA:1.10.10.10 -
1 59 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
64 246 ProSiteProfiles PS51733 Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL) catalytic domain profile.
64 246 InterPro IPR004143 Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL), catalytic domain
71 260 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases
71 260 InterPro IPR045864 Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)
77 244 CDD cd16442 BPL
77 244 InterPro IPR004408 Biotin--acetyl-CoA-carboxylase ligase
80 201 Pfam PF03099 Biotin/lipoate A/B protein ligase family
80 201 InterPro IPR004143 Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL), catalytic domain
263 309 SUPERFAMILY SSF50037 C-terminal domain of transcriptional repressors
263 309 InterPro IPR008988 Transcriptional repressor, C-terminal
2 54 Pfam PF08279 HTH domain
2 54 InterPro IPR013196 Helix-turn-helix, type 11
65 261 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2
65 261 InterPro IPR045864 Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)
3 55 SUPERFAMILY SSF46785 Winged helix DNA-binding domain
3 55 InterPro IPR036390 Winged helix DNA-binding domain superfamily
1 309 Hamap MF_00978 Bifunctional ligase/repressor BirA [birA].
1 309 InterPro IPR030855 Bifunctional ligase/repressor BirA
263 312 Gene3D G3DSA:2.30.30.100 -
73 308 NCBIfam TIGR00121 biotin--[acetyl-CoA-carboxylase] ligase
73 308 InterPro IPR004408 Biotin--acetyl-CoA-carboxylase ligase
6 304 PANTHER PTHR12835 BIOTIN PROTEIN LIGASE

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 + 1

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA4280
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
1 0.633

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.

78 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
44J I6YFP0 569.7 Da LogP -1.63 TPSA 226.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@@H]3C[C@@H]([C@@H]([C@@H]3…
44K I6YFP0 537.7 Da LogP 0.43 TPSA 186.0 1 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3CC[C@H](C3)CNS(=O)(=O)N…
44L I6YFP0 573.6 Da LogP -1.32 TPSA 215.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
44M I6YFP0 596.7 Da LogP -0.98 TPSA 264.2 3 viol. Alert c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
44N I6YFP0 586.7 Da LogP -1.48 TPSA 232.9 3 viol. ✓ Clean C[C@]1([C@@H]([C@H](O[C@H]1n2cnc3c2ncnc3N)COS(=…
44O I6YFP0 555.6 Da LogP -1.00 TPSA 204.5 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3CNC[C@H](O3)COS(=O)(=O)…
44Q I6YFP0 555.6 Da LogP -1.27 TPSA 215.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H](C[C@H](O3)CNS(=O…
44R I6YFP0 513.6 Da LogP -0.94 TPSA 195.2 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)COCCNS(=O)(=O)NC(=O)CCCC[C@H]…
590 I6YFP0 597.6 Da LogP -0.55 TPSA 261.4 2 viol. Alert c1nc(c2c(n1)n(cn2)[C@H]3C([C@@H]([C@H](O3)COS(=…
594 I6YFP0 574.6 Da LogP -0.89 TPSA 212.7 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@H]([C@@H]([C@H](O3)C…
BQX Q2G258 526.6 Da LogP -0.34 TPSA 198.1 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)CCCCNS(=O)(=O)NC(=O)NCCCC[C@H…
BT5 I6YFP0 573.5 Da LogP -0.59 TPSA 233.3 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
N3G A0A3A5LBF0 511.6 Da LogP -0.13 TPSA 186.0 1 viol. ✓ Clean c1nc(c2c(n1)n(cn2)CCCCNS(=O)(=O)NC(=O)CCCC[C@H]…

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.