Protein profile

KP13_04982

ATP-dependent RNA helicase hrpA

Genome: KpKP13

Gene: hrpA AHE44845.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GS59
Amino acids 1300
Annotations 8
Features 38
PDB binders 5
Druggability 0.393

Overview

Basic information about this protein and its source genome.

Accession
KP13_04982
Gene
hrpA AHE44845.1
Status
annotated
Amino acids
1300
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
51.163
Human E-value
1.23e-07
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
93.281
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
88.3

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 0.393
Structure A0A0H3GS59
Pocket Pocket 97
P2Rank 0.62
Structure A0A0H3GS59
Pocket Pocket 1
ColabFold model
FPocket 0.656 · Pocket 101
P2Rank 0.674 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 144 / 4744 genomes with a hit
Normalized 0.03

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0004386 Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix.
  • 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:0003676 Binding to a nucleic acid.
  • GO:0003724 Unwinding of an RNA helix, driven by ATP hydrolysis.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.

Sequence Features

Domain/signature hits from InterPro and related databases.

38 records
Show feature table
Start End DB Term Name
84 233 Pfam PF00270 DEAD/DEAH box helicase
84 233 InterPro IPR011545 DEAD/DEAH box helicase domain
286 403 Pfam PF00271 Helicase conserved C-terminal domain
286 403 InterPro IPR001650 Helicase, C-terminal
254 412 CDD cd18791 SF2_C_RHA
274 444 ProSiteProfiles PS51194 Superfamilies 1 and 2 helicase C-terminal domain profile.
274 444 InterPro IPR001650 Helicase, C-terminal
622 698 Pfam PF07717 Oligonucleotide/oligosaccharide-binding (OB)-fold
622 698 InterPro IPR011709 DEAD-box helicase, OB fold
253 420 Gene3D G3DSA:3.40.50.300 -
253 420 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
464 559 SMART SM00847 ha2_5
464 559 InterPro IPR007502 Helicase-associated domain
713 1297 Pfam PF11898 Domain of unknown function (DUF3418)
713 1297 InterPro IPR024590 RNA helicase HrpA, C-terminal
77 249 CDD cd17989 DEXHc_HrpA
762 782 Coils Coil Coil
13 1297 NCBIfam TIGR01967 ATP-dependent RNA helicase HrpA
13 1297 InterPro IPR010222 RNA helicase HrpA
28 252 Gene3D G3DSA:3.40.50.300 -
28 252 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
466 551 Pfam PF04408 Helicase associated domain (HA2)
466 551 InterPro IPR007502 Helicase-associated domain
451 552 Gene3D G3DSA:1.20.120.1080 -
87 250 ProSiteProfiles PS51192 Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile.
87 250 InterPro IPR014001 Helicase superfamily 1/2, ATP-binding domain
75 692 PANTHER PTHR18934 ATP-DEPENDENT RNA HELICASE
304 404 SMART SM00490 helicmild6
304 404 InterPro IPR001650 Helicase, C-terminal
75 259 SMART SM00487 ultradead3
75 259 InterPro IPR014001 Helicase superfamily 1/2, ATP-binding domain
450 552 FunFam G3DSA:1.20.120.1080:FF:000005 ATP-dependent helicase HrpA
253 420 FunFam G3DSA:3.40.50.300:FF:000439 ATP-dependent RNA helicase HrpA
74 600 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
74 600 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
92 384 SMART SM00382 AAA_5
92 384 InterPro IPR003593 AAA+ ATPase domain
28 252 FunFam G3DSA:3.40.50.300:FF:000575 ATP-dependent helicase hrpA

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_A0A0H3GS59
AlphaFold full sequence Viewing
ColabFold KP13_04982
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
97 0.393
3 0.372

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 6.72 0.342
2 5.23 0.244
3 4.84 0.216
4 4.72 0.207
5 3.14 0.106

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.

55 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
ALF Q05B79 103.0 Da LogP 1.30 TPSA 0.0 ✓ Ro5 ✓ Clean F[Al-](F)(F)F
ANP P53131 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)…
BEF G0RY84 66.0 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean [Be-](F)(F)F
BTB G0SEG4 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
CAC G0RY84 137.0 Da LogP -0.52 TPSA 40.1 ✓ Ro5 ✓ Clean C[As](=O)(C)[O-]

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.