RRP4_AERPE
ID RRP4_AERPE Reviewed; 235 AA.
AC Q9YC02;
DT 25-MAR-2003, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1999, sequence version 1.
DT 25-MAY-2022, entry version 114.
DE RecName: Full=Exosome complex component Rrp4 {ECO:0000255|HAMAP-Rule:MF_00623};
GN Name=rrp4 {ECO:0000255|HAMAP-Rule:MF_00623}; OrderedLocusNames=APE_1448;
OS Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 /
OS K1).
OC Archaea; Crenarchaeota; Thermoprotei; Desulfurococcales;
OC Desulfurococcaceae; Aeropyrum.
OX NCBI_TaxID=272557;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1;
RX PubMed=10382966; DOI=10.1093/dnares/6.2.83;
RA Kawarabayasi Y., Hino Y., Horikawa H., Yamazaki S., Haikawa Y., Jin-no K.,
RA Takahashi M., Sekine M., Baba S., Ankai A., Kosugi H., Hosoyama A.,
RA Fukui S., Nagai Y., Nishijima K., Nakazawa H., Takamiya M., Masuda S.,
RA Funahashi T., Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A.,
RA Aoki K., Kubota K., Nakamura Y., Nomura N., Sako Y., Kikuchi H.;
RT "Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon,
RT Aeropyrum pernix K1.";
RL DNA Res. 6:83-101(1999).
RN [2]
RP X-RAY CRYSTALLOGRAPHY (3.20 ANGSTROMS).
RA Murayama K., Kato-Murayama M., Takemoto C., Terada T., Shirouzu M.,
RA Yokoyama S.;
RT "Crystal structure of putative exosome complex RNA-binding protein.";
RL Submitted (MAY-2007) to the PDB data bank.
CC -!- FUNCTION: Non-catalytic component of the exosome, which is a complex
CC involved in RNA degradation. Increases the RNA binding and the
CC efficiency of RNA degradation. Confers strong poly(A) specificity to
CC the exosome. {ECO:0000255|HAMAP-Rule:MF_00623}.
CC -!- SUBUNIT: Component of the archaeal exosome complex. Forms a trimer of
CC Rrp4 and/or Csl4 subunits. The trimer associates with a hexameric ring-
CC like arrangement composed of 3 Rrp41-Rrp42 heterodimers.
CC {ECO:0000255|HAMAP-Rule:MF_00623}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00623}.
CC -!- SIMILARITY: Belongs to the RRP4 family. {ECO:0000255|HAMAP-
CC Rule:MF_00623}.
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DR EMBL; BA000002; BAA80446.1; -; Genomic_DNA.
DR PIR; H72623; H72623.
DR PDB; 2Z0S; X-ray; 3.20 A; A=1-235.
DR PDBsum; 2Z0S; -.
DR AlphaFoldDB; Q9YC02; -.
DR SMR; Q9YC02; -.
DR STRING; 272557.APE_1448; -.
DR EnsemblBacteria; BAA80446; BAA80446; APE_1448.
DR KEGG; ape:APE_1448; -.
DR eggNOG; arCOG00678; Archaea.
DR OMA; NWFVDIN; -.
DR EvolutionaryTrace; Q9YC02; -.
DR Proteomes; UP000002518; Chromosome.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0000178; C:exosome (RNase complex); IEA:UniProtKB-KW.
DR GO; GO:0008143; F:poly(A) binding; IEA:InterPro.
DR GO; GO:0006401; P:RNA catabolic process; IEA:UniProtKB-UniRule.
DR Gene3D; 2.40.50.140; -; 1.
DR Gene3D; 3.30.1370.10; -; 1.
DR HAMAP; MF_00623; Exosome_Rrp4; 1.
DR InterPro; IPR026699; Exosome_RNA_bind1/RRP40/RRP4.
DR InterPro; IPR004087; KH_dom.
DR InterPro; IPR004088; KH_dom_type_1.
DR InterPro; IPR036612; KH_dom_type_1_sf.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR023474; Rrp4.
DR InterPro; IPR022967; S1_dom.
DR InterPro; IPR003029; S1_domain.
DR PANTHER; PTHR21321; PTHR21321; 1.
DR Pfam; PF15985; KH_6; 1.
DR SMART; SM00322; KH; 1.
DR SMART; SM00316; S1; 1.
DR SUPFAM; SSF50249; SSF50249; 1.
DR SUPFAM; SSF54791; SSF54791; 1.
DR PROSITE; PS50126; S1; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Cytoplasm; Exosome; Reference proteome; RNA-binding.
FT CHAIN 1..235
FT /note="Exosome complex component Rrp4"
FT /id="PRO_0000050144"
FT DOMAIN 67..139
FT /note="S1 motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00623"
FT DOMAIN 149..205
FT /note="KH"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00623"
FT STRAND 70..77
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 79..85
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 87..90
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 92..95
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 96..100
FT /evidence="ECO:0007829|PDB:2Z0S"
FT TURN 106..109
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 120..128
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 134..137
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 140..142
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 148..153
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 156..158
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 160..162
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 165..167
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 168..177
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 180..184
FT /evidence="ECO:0007829|PDB:2Z0S"
FT TURN 185..187
FT /evidence="ECO:0007829|PDB:2Z0S"
FT STRAND 188..192
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 196..211
FT /evidence="ECO:0007829|PDB:2Z0S"
FT HELIX 219..232
FT /evidence="ECO:0007829|PDB:2Z0S"
SQ SEQUENCE 235 AA; 26061 MW; 70A79A5EB0BF8CE7 CRC64;
MSSERQLAGR IVVPGEPLPE EVEASPPYVI DYKGVKRATV VGLLREKGDG GGRAFVKLKE
IYVPQAGDVV IGLIQSVGIM NWFVDINSPY VAVLSVQDFL GRPFNPAVDD MQSLLKVGDY
IKAKVVAFDK TRSPLLTVQG EGLGRIVRGK IVEISPAKVP RVIGRKMSML KTLEEKTECK
IFVARNGRIH LECPNEDLEA IAVMAIKIID EEAYTSGLTK RIIKFIEEER RIREV
