UniProtKB - P09155 (RND_ECOLI)
Protein
Ribonuclease D
Gene
rnd
Organism
Escherichia coli (strain K12)
Status
Functioni
Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides.UniRule annotation2 Publications
Catalytic activityi
- Exonucleolytic cleavage that removes extra residues from the 3'-terminus of tRNA to produce 5'-mononucleotides.UniRule annotation1 Publication EC:3.1.13.5
Cofactori
a divalent metal cationUniRule annotation1 Publication
GO - Molecular functioni
- 3'-5'-exoribonuclease activity Source: EcoCyc
- nucleic acid binding Source: InterPro
- nucleotide binding Source: InterPro
- ribonuclease D activity Source: EcoCyc
GO - Biological processi
- tRNA 3'-end processing Source: UniProtKB-UniRule
Keywordsi
Molecular function | Exonuclease, Hydrolase, Nuclease |
Biological process | tRNA processing |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10858-MONOMER MetaCyc:EG10858-MONOMER |
Names & Taxonomyi
Protein namesi | Recommended name: Ribonuclease DUniRule annotation (EC:3.1.13.5UniRule annotation)Short name: RNase DUniRule annotation |
Gene namesi | Name:rndUniRule annotation Ordered Locus Names:b1804, JW1793 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
Cytoplasm and Cytosol
Other locations
- cytoplasm Source: UniProtKB-SubCell
Keywords - Cellular componenti
CytoplasmPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000097368 | 1 – 375 | Ribonuclease DAdd BLAST | 375 |
Proteomic databases
jPOSTi | P09155 |
PaxDbi | P09155 |
PRIDEi | P09155 |
Interactioni
Protein-protein interaction databases
BioGRIDi | 4260338, 55 interactors |
IntActi | P09155, 1 interactor |
STRINGi | 511145.b1804 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P09155 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P09155 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 3 – 169 | 3'-5' exonucleaseUniRule annotationAdd BLAST | 167 | |
Domaini | 210 – 289 | HRDCUniRule annotationAdd BLAST | 80 |
Sequence similaritiesi
Belongs to the RNase D family.UniRule annotation
Phylogenomic databases
eggNOGi | COG0349, Bacteria |
HOGENOMi | CLU_042387_0_1_6 |
InParanoidi | P09155 |
PhylomeDBi | P09155 |
Family and domain databases
Gene3Di | 3.30.420.10, 1 hit |
HAMAPi | MF_01899, RNase_D, 1 hit |
InterProi | View protein in InterPro IPR002562, 3'-5'_exonuclease_dom IPR010997, HRDC-like_sf IPR002121, HRDC_dom IPR006292, RNase_D IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF01612, DNA_pol_A_exo1, 1 hit PF00570, HRDC, 1 hit |
SMARTi | View protein in SMART SM00474, 35EXOc, 1 hit SM00341, HRDC, 1 hit |
SUPFAMi | SSF47819, SSF47819, 2 hits SSF53098, SSF53098, 1 hit |
TIGRFAMsi | TIGR01388, rnd, 1 hit |
PROSITEi | View protein in PROSITE PS50967, HRDC, 1 hit |
i Sequence
Sequence statusi: Complete.
P09155-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MNYQMITTDD ALASLCEAVR AFPAIALDTE FVRTRTYYPQ LGLIQLFDGE
60 70 80 90 100
HLALIDPLGI TDWSPLKAIL RDPSITKFLH AGSEDLEVFL NVFGELPQPL
110 120 130 140 150
IDTQILAAFC GRPMSWGFAS MVEEYSGVTL DKSESRTDWL ARPLTERQCE
160 170 180 190 200
YAAADVWYLL PITAKLMVET EASGWLPAAL DECRLMQMRR QEVVAPEDAW
210 220 230 240 250
RDITNAWQLR TRQLACLQLL ADWRLRKARE RDLAVNFVVR EEHLWSVARY
260 270 280 290 300
MPGSLGELDS LGLSGSEIRF HGKTLLALVE KAQTLPEDAL PQPMLNLMDM
310 320 330 340 350
PGYRKAFKAI KSLITDVSET HKISAELLAS RRQINQLLNW HWKLKPQNNL
360 370
PELISGWRGE LMAEALHNLL QEYPQ
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X07055 Genomic DNA Translation: CAA30098.1 U00096 Genomic DNA Translation: AAC74874.1 AP009048 Genomic DNA Translation: BAA15599.1 X70994 Genomic DNA Translation: CAA50322.1 |
PIRi | S01223, NRECD |
RefSeqi | NP_416318.1, NC_000913.3 |
Genome annotation databases
EnsemblBacteriai | AAC74874; AAC74874; b1804 BAA15599; BAA15599; BAA15599 |
GeneIDi | 946328 |
KEGGi | ecj:JW1793 eco:b1804 |
PATRICi | fig|511145.12.peg.1880 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X07055 Genomic DNA Translation: CAA30098.1 U00096 Genomic DNA Translation: AAC74874.1 AP009048 Genomic DNA Translation: BAA15599.1 X70994 Genomic DNA Translation: CAA50322.1 |
PIRi | S01223, NRECD |
RefSeqi | NP_416318.1, NC_000913.3 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1YT3 | X-ray | 1.60 | A | 1-375 | [»] | |
SMRi | P09155 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4260338, 55 interactors |
IntActi | P09155, 1 interactor |
STRINGi | 511145.b1804 |
Proteomic databases
jPOSTi | P09155 |
PaxDbi | P09155 |
PRIDEi | P09155 |
Protocols and materials databases
DNASUi | 946328 |
Genome annotation databases
EnsemblBacteriai | AAC74874; AAC74874; b1804 BAA15599; BAA15599; BAA15599 |
GeneIDi | 946328 |
KEGGi | ecj:JW1793 eco:b1804 |
PATRICi | fig|511145.12.peg.1880 |
Organism-specific databases
EchoBASEi | EB0851 |
Phylogenomic databases
eggNOGi | COG0349, Bacteria |
HOGENOMi | CLU_042387_0_1_6 |
InParanoidi | P09155 |
PhylomeDBi | P09155 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10858-MONOMER MetaCyc:EG10858-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P09155 |
PROi | PR:P09155 |
Family and domain databases
Gene3Di | 3.30.420.10, 1 hit |
HAMAPi | MF_01899, RNase_D, 1 hit |
InterProi | View protein in InterPro IPR002562, 3'-5'_exonuclease_dom IPR010997, HRDC-like_sf IPR002121, HRDC_dom IPR006292, RNase_D IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF01612, DNA_pol_A_exo1, 1 hit PF00570, HRDC, 1 hit |
SMARTi | View protein in SMART SM00474, 35EXOc, 1 hit SM00341, HRDC, 1 hit |
SUPFAMi | SSF47819, SSF47819, 2 hits SSF53098, SSF53098, 1 hit |
TIGRFAMsi | TIGR01388, rnd, 1 hit |
PROSITEi | View protein in PROSITE PS50967, HRDC, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | RND_ECOLI | |
Accessioni | P09155Primary (citable) accession number: P09155 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 1, 1989 |
Last sequence update: | July 1, 1989 | |
Last modified: | April 7, 2021 | |
This is version 160 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families