ID A0A2Z4JR76_9BURK Unreviewed; 263 AA.
AC A0A2Z4JR76;
DT 10-OCT-2018, integrated into UniProtKB/TrEMBL.
DT 10-OCT-2018, sequence version 1.
DT 27-MAR-2024, entry version 25.
DE RecName: Full=Ribonuclease 3 {ECO:0000256|HAMAP-Rule:MF_00104};
DE EC=3.1.26.3 {ECO:0000256|HAMAP-Rule:MF_00104};
DE AltName: Full=Ribonuclease III {ECO:0000256|HAMAP-Rule:MF_00104};
DE Short=RNase III {ECO:0000256|HAMAP-Rule:MF_00104};
GN Name=rnc {ECO:0000256|HAMAP-Rule:MF_00104,
GN ECO:0000313|EMBL:MBT8551119.1};
GN ORFNames=DP176_03770 {ECO:0000313|EMBL:RAZ42953.1}, G6650_07385
GN {ECO:0000313|EMBL:MBT8618934.1}, G6684_06250
GN {ECO:0000313|EMBL:QWD27874.1}, G6731_04030
GN {ECO:0000313|EMBL:MBT8551119.1}, Pas1_02605
GN {ECO:0000313|EMBL:AWW49365.1};
OS Polynucleobacter paneuropaeus.
OC Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales;
OC Burkholderiaceae; Polynucleobacter.
OX NCBI_TaxID=2527775 {ECO:0000313|EMBL:AWW49365.1, ECO:0000313|Proteomes:UP000248592};
RN [1] {ECO:0000313|Proteomes:UP000248592}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=MG-25-Pas1-D2 {ECO:0000313|Proteomes:UP000248592};
RA Hahn M.W.;
RT "Description of a new Polynucleobacter species.";
RL Submitted (JUN-2018) to the EMBL/GenBank/DDBJ databases.
RN [2] {ECO:0000313|EMBL:RAZ42953.1, ECO:0000313|Proteomes:UP000251072}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=FUKU-NW-11 {ECO:0000313|EMBL:RAZ42953.1,
RC ECO:0000313|Proteomes:UP000251072};
RA Hahn M.W.;
RT "Genome of strain Polynucleobacter sp. FUKU-NW-11.";
RL Submitted (JUN-2018) to the EMBL/GenBank/DDBJ databases.
RN [3] {ECO:0000313|EMBL:AWW49365.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=MG-25-Pas1-D2 {ECO:0000313|EMBL:AWW49365.1};
RX PubMed=30465643; DOI=10.1099/ijsem.0.003130;
RA Hoetzinger M., Schmidt J., Pitt A., Koll U., Lang E., Hahn M.W.;
RT "Polynucleobacter paneuropaeus sp. nov., characterized by six strains
RT isolated from freshwater lakes located along a 3000 km north-south cross-
RT section across Europe.";
RL Int. J. Syst. Evol. Microbiol. 69:203-213(2019).
RN [4] {ECO:0000313|EMBL:QWD27874.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=AP-SiebGG-20-E3 {ECO:0000313|EMBL:QWD27874.1};
RA Hahn M.W., Hoetzinger M.;
RT "Genomes of Polynucleobacter paneuropaeus strains.";
RL Submitted (FEB-2020) to the EMBL/GenBank/DDBJ databases.
RN [5] {ECO:0000313|EMBL:MBT8551119.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=AP-ClouGG-20-C5 {ECO:0000313|EMBL:MBT8618934.1}, and SM1-W8
RC {ECO:0000313|EMBL:MBT8551119.1};
RX PubMed=33674852; DOI=10.1093/gbe/evab019;
RA Hoetzinger M., Pitt A., Huemer A., Hahn M.W.;
RT "Continental-Scale Gene Flow Prevents Allopatric Divergence of Pelagic
RT Freshwater Bacteria. .";
RL Genome Biol. Evol. 13:evab019-evab019(2021).
CC -!- FUNCTION: Digests double-stranded RNA. Involved in the processing of
CC primary rRNA transcript to yield the immediate precursors to the large
CC and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when
CC they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA
CC of type II CRISPR loci if present in the organism. {ECO:0000256|HAMAP-
CC Rule:MF_00104}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=Endonucleolytic cleavage to 5'-phosphomonoester.; EC=3.1.26.3;
CC Evidence={ECO:0000256|ARBA:ARBA00000109, ECO:0000256|HAMAP-
CC Rule:MF_00104};
CC -!- COFACTOR:
CC Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
CC Evidence={ECO:0000256|HAMAP-Rule:MF_00104};
CC -!- SUBUNIT: Homodimer. {ECO:0000256|HAMAP-Rule:MF_00104}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00104}.
CC -!- SIMILARITY: Belongs to the ribonuclease III family.
CC {ECO:0000256|ARBA:ARBA00010183}.
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DR EMBL; CP030085; AWW49365.1; -; Genomic_DNA.
DR EMBL; JAANEY010000001; MBT8551119.1; -; Genomic_DNA.
DR EMBL; JAANGZ010000004; MBT8618934.1; -; Genomic_DNA.
DR EMBL; CP049634; QWD27874.1; -; Genomic_DNA.
DR EMBL; QMCH01000002; RAZ42953.1; -; Genomic_DNA.
DR AlphaFoldDB; A0A2Z4JR76; -.
DR KEGG; poh:DPM16_05835; -.
DR OrthoDB; 9805026at2; -.
DR Proteomes; UP000248592; Chromosome.
DR Proteomes; UP000251072; Unassembled WGS sequence.
DR Proteomes; UP000676948; Chromosome.
DR Proteomes; UP000744877; Unassembled WGS sequence.
DR Proteomes; UP000783102; Unassembled WGS sequence.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0004525; F:ribonuclease III activity; IEA:UniProtKB-UniRule.
DR GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-KW.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-UniRule.
DR GO; GO:0006364; P:rRNA processing; IEA:UniProtKB-UniRule.
DR GO; GO:0008033; P:tRNA processing; IEA:UniProtKB-KW.
DR CDD; cd10845; DSRM_RNAse_III_family; 1.
DR CDD; cd00593; RIBOc; 1.
DR Gene3D; 3.30.160.20; -; 1.
DR Gene3D; 1.10.1520.10; Ribonuclease III domain; 1.
DR HAMAP; MF_00104; RNase_III; 1.
DR InterPro; IPR014720; dsRBD_dom.
DR InterPro; IPR011907; RNase_III.
DR InterPro; IPR000999; RNase_III_dom.
DR InterPro; IPR036389; RNase_III_sf.
DR NCBIfam; TIGR02191; RNaseIII; 1.
DR PANTHER; PTHR11207:SF0; RIBONUCLEASE 3; 1.
DR PANTHER; PTHR11207; RIBONUCLEASE III; 1.
DR Pfam; PF00035; dsrm; 1.
DR Pfam; PF14622; Ribonucleas_3_3; 1.
DR SMART; SM00358; DSRM; 1.
DR SMART; SM00535; RIBOc; 1.
DR SUPFAM; SSF54768; dsRNA-binding domain-like; 1.
DR SUPFAM; SSF69065; RNase III domain-like; 1.
DR PROSITE; PS50137; DS_RBD; 1.
DR PROSITE; PS00517; RNASE_3_1; 1.
DR PROSITE; PS50142; RNASE_3_2; 1.
PE 3: Inferred from homology;
KW Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00104};
KW Endonuclease {ECO:0000256|ARBA:ARBA00022759, ECO:0000256|HAMAP-
KW Rule:MF_00104};
KW Hydrolase {ECO:0000256|ARBA:ARBA00022801, ECO:0000256|HAMAP-Rule:MF_00104};
KW Magnesium {ECO:0000256|HAMAP-Rule:MF_00104};
KW Metal-binding {ECO:0000256|HAMAP-Rule:MF_00104};
KW mRNA processing {ECO:0000256|ARBA:ARBA00022664, ECO:0000256|HAMAP-
KW Rule:MF_00104};
KW Nuclease {ECO:0000256|ARBA:ARBA00022722, ECO:0000256|HAMAP-Rule:MF_00104};
KW Reference proteome {ECO:0000313|Proteomes:UP000248592};
KW RNA-binding {ECO:0000256|ARBA:ARBA00022884, ECO:0000256|HAMAP-
KW Rule:MF_00104}; rRNA processing {ECO:0000256|HAMAP-Rule:MF_00104};
KW rRNA-binding {ECO:0000256|HAMAP-Rule:MF_00104};
KW tRNA processing {ECO:0000256|HAMAP-Rule:MF_00104}.
FT DOMAIN 9..131
FT /note="RNase III"
FT /evidence="ECO:0000259|PROSITE:PS50142"
FT DOMAIN 158..228
FT /note="DRBM"
FT /evidence="ECO:0000259|PROSITE:PS50137"
FT REGION 232..263
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 246..263
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT ACT_SITE 48
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00104"
FT ACT_SITE 120
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00104"
FT BINDING 44
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00104"
FT BINDING 117
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00104"
FT BINDING 120
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00104"
SQ SEQUENCE 263 AA; 28984 MW; 158D0A2885B48FB0 CRC64;
MNARAVIDIV PLQERLGYTF KKPELLTQAL THRSHSKKNN ERLEFLGDSV LNCVVAEMLY
ERYSDLDEGD LSRVRANLVK QQALYEIAQS LALSDYLRLG EGELKSGGFR RPSILADTLE
AVTGAIFLDG GFDSAKDCLR KLYSLILQNV DPKTLGKDDK TLLQECLQSY QLPLPTYNVT
GTSGAAHNQQ FEVECLIPNL KITVKGEGAS RRAAEQGAAK LALAAILKAL PQESRKPKKT
RAAKKKAAKQ DAGEEQLNLK LKG
//
