Protein profile

PA4937

exoribonuclease R

Genome: NC_002516.2

Gene: rnr PA4937 Structure source: AlphaFold UniProt Q9HUM7
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Amino acids 904
Annotations 9
Features 45
PDB binders 0
Druggability 0.647

Overview

Basic information about this protein and its source genome.

Accession
PA4937
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
rnr PA4937
Status
annotated
Amino acids
904
Structure source
AlphaFold
EC
3.1.13.1
GO
GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0008859 Catalysis of the reaction: RNA + H2O = 5'-phosphomononucleotides. Cleaves RNA in the 3' to 5' direction. GO:0003723 Binding to an RNA molecule or a portion thereof. GO:0006402 The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes. GO:0016070 The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. GO:0004540 Catalysis of the cleavage of phosphodiester bonds in chains of RNA.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
40.625
Human E-value
2.2e-27
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 0.647
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

MADWQNLDPEAAREAEKYENPIPSRELILAHLSERGAPATRSQLLDEFGLAGEEPEEALRRRLRAMERDGQLIYTRRGAYAPVDKLDLIRGRISGHRDGFGFLIPDDGSDDLFLSPTQMRLVFDGDRALARVSGHDRRGRREGQLVEVIERAHEIVVGRYFEESGIGVVVADNPKIQQEVLIPPGKAGKARHNQFVQVRIEQWPSIHRQAQGEIVEVLGDYMAPGMEIEVALRSYDIPHVWPAAVEKEAAKLKPEVAEKDKEKRVDLRQVPFVTIDGEDARDFDDAVYAEAKRGGGWRLFVAIADVSHYVKVGSALDEEAARRGNSVYFPERVIPMLPEVLSNGLCSLNPLVDRLAMVCEMTLSKAGKLTGYQFYEAVIHSHARLTYTKVSQLLEHPDSVEAENLRQQLPGVVPHLQQLYALYKALLAGRHVRGAIDFETQETRIVFGADRKISEIRPTQRNDAHRLIEECMLCANVATARFLQKHAIPALYRVHDGPPQEKLNNLRQFLGELGLSLGRGKAAPTPGDYQELLEKIHDRADFRLIQTVMLRSLSQAVYSPDNNGHFGLNYDAYTHFTSPIRRYPDLLVHRAIRSVIRSKAETPHVQRAGAASMPKARIYPYDELRLDQLGEQCSMTERRADEATRDVTNWLKCEYMRERVGETFPGVITAVTGFGLFVELTDIFVEGLVHVTALPGDYYHFDAVHHRLSGERTGRSFRLGDTTEVVVARVDLDERKIDFELAGNVLSAPIGRKKRNGDKSANAGKAPKGRKGASVPEVDLEPALASPDAAVVPRRKAGKVQALPPVAPELLAQAAEMLGNTDVRKSREVKQALLAEARVGGKDKGGKKGKVVPAGKSAKGKAKDGKPAAAAKPGKPTKHRKGPSKPKADNAPAATGARKRKAKS

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0008859 Catalysis of the reaction: RNA + H2O = 5'-phosphomononucleotides. Cleaves RNA in the 3' to 5' direction.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • GO:0006402 The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes.
  • GO:0016070 The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.
  • GO:0004540 Catalysis of the cleavage of phosphodiester bonds in chains of RNA.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0004518 Catalysis of the cleavage of ester linkages within nucleic acids.

Sequence Features

Domain/signature hits from InterPro and related databases.

45 records
Show feature table
Start End DB Term Name
142 752 PANTHER PTHR23355 RIBONUCLEASE
662 768 FunFam G3DSA:2.40.50.140:FF:000362 Ribonuclease R
660 742 CDD cd04471 S1_RNase_R
264 598 SMART SM00955 RNB_2
264 598 InterPro IPR001900 Ribonuclease II/R
169 242 Pfam PF17876 Cold shock domain
169 242 InterPro IPR040476 RNase II/RNase R, cold shock domain
90 149 SMART SM00357 csp_8
90 149 InterPro IPR011129 Cold shock domain
659 740 Pfam PF00575 S1 RNA binding domain
659 740 InterPro IPR003029 S1 domain
91 148 Pfam PF08206 Ribonuclease B OB domain
91 148 InterPro IPR013223 Ribonuclease B, N-terminal OB domain
79 741 NCBIfam TIGR00358 VacB/RNase II family 3'-5' exoribonuclease
79 741 InterPro IPR004476 Ribonuclease II/ribonuclease R
142 239 SUPERFAMILY SSF50249 Nucleic acid-binding proteins
142 239 InterPro IPR012340 Nucleic acid-binding, OB-fold
661 742 ProSiteProfiles PS50126 S1 domain profile.
661 742 InterPro IPR003029 S1 domain
661 741 SUPERFAMILY SSF50249 Nucleic acid-binding proteins
661 741 InterPro IPR012340 Nucleic acid-binding, OB-fold
662 771 Gene3D G3DSA:2.40.50.140 -
662 771 InterPro IPR012340 Nucleic acid-binding, OB-fold
839 904 MobiDBLite mobidb-lite consensus disorder prediction
78 152 Gene3D G3DSA:2.40.50.140 -
78 152 InterPro IPR012340 Nucleic acid-binding, OB-fold
752 781 MobiDBLite mobidb-lite consensus disorder prediction
626 646 Coils Coil Coil
23 742 NCBIfam TIGR02063 ribonuclease R
23 742 InterPro IPR011805 Ribonuclease R
71 151 SUPERFAMILY SSF50249 Nucleic acid-binding proteins
71 151 InterPro IPR012340 Nucleic acid-binding, OB-fold
565 589 ProSitePatterns PS01175 Ribonuclease II family signature.
565 589 InterPro IPR022966 Ribonuclease II/R, conserved site
72 150 FunFam G3DSA:2.40.50.140:FF:000213 Ribonuclease R
264 597 Pfam PF00773 RNB domain
264 597 InterPro IPR001900 Ribonuclease II/R
224 658 SUPERFAMILY SSF50249 Nucleic acid-binding proteins
224 658 InterPro IPR012340 Nucleic acid-binding, OB-fold
42 742 Hamap MF_01895 Ribonuclease R [rnr].
42 742 InterPro IPR011805 Ribonuclease R
659 742 SMART SM00316 S1_6
659 742 InterPro IPR022967 RNA-binding domain, S1
27 81 Pfam PF08461 Ribonuclease R winged-helix domain
27 81 InterPro IPR013668 Ribonuclease R winged-helix domain

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

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 PA4937
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 0.647
6 0.394