2BA0,2Z0S,2JE6,2JEB,3L7Z,2JEA


Conserved Protein Domain Family
KH-I_Rrp4_prokar
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cd22524: KH-I_Rrp4_prokar 
type I K homology (KH) RNA-binding domain found in exosome complex component Rrp4 mainly from archaea
The subfamily corresponds to ribosomal RNA-processing protein 4 (Rrp4) mainly from archaea. It is a non-catalytic component of the exosome, which is a phosphorolytic 3'-5' exoribonuclease complex involved in RNA degradation and processing. Rrp4 increases the RNA binding and the efficiency of RNA degradation and confers strong poly(A) specificity to the exosome.
Links
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Statistics
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PSSM-Id: 411952
Aligned: 31 rows
Threshold Bit Score: 92.6504
Created: 17-Jul-2020
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
Download Cn3D
 
Conserved site includes 17 residues -Click on image for an interactive view with Cn3D
Feature 1:putative nucleic acid binding site [nucleic acid binding site]
Evidence:
  • Comment:flanked by the GXXG motif and a variable ssRNA/DNA binding loop
  • Comment:Based on the structure evidence that other KH-I superfamily members bind RNA/ssDNA.
Download Cn3D for Viewing 3D StructureScroll to Sequence Alignment Display
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1             # ### #####  ##  ##    ####                                             
2BA0_A    137 GRIVAINPARVPRVIGKKGSMIKLLKSElDVQIVVGQNGLIWVNGDr----RKVSIAEEAIYLIEQEAHTEGLTDRVAEF 212 Archaeoglobus fulg...
ABK78159  142 GDLVTISPSKVARLIGKRGAMIETIEKAtGATVTIGQNGRVVVSCEs---pDGLLKAKKAIQMVEEQAHMSNLTDRVRSM 218 Cenarchaeum symbio...
A9A5C8    143 GVLMEISPSKVPRLIGKKGSMIQMIEEAtDAAVTIGQNGWVVVSCEs---pEGLLKAKKAIQMVNEQAHVANLTDQVKEM 219 Nitrosopumilus mar...
Q8TYC0    153 GQVVEIDPVKVPRVIGRKGSMIKMLKRVlGCDIVVGANGRIYVRAReepkkERELLAVRAIREIERRSHLRGLTDWLKAN 232 Methanopyrus kandl...
B1L6N8    145 GYLLEVDPAKVPRVIGKRQSMLSMLKEAtRSEIIVANNGRIWVKPPs---vKELIVLEKALKKIEEESHVSGLSDRISSL 221 Candidatus Korarch...
RLG62217  155 YYVIKVSSTKLPRIIGKKGSMIKTIKKKiDGDLVIAQNGVILYKGDy----NNYLLLKRIINFIVFKTFAAGLTNAVASM 230 Candidatus Geother...
RLG67925  161 GFLVAIQPSKLPRLIGRGGSMISAIKRGlNRDIIVGENGYLVLRTEs---lRKRQIFERIIRIIEAQAHTTGLTERVIKL 237 archaeon
Q8ZVM8    147 GTVVEITPVKVPRVIGKRGSMLNTLMEL-GCDIVVGQNGRIWVKCKd---pRDEVFLASLIRKIEAESHVMGLTDRIRAE 222 Pyrobaculum aeroph...
D5U396    156 GVVVDVKPSKIPRLIGKRGSMYNLLTSMsGCEITIAQNGFVWLKCHd---eNRAKVLIQAIKLIELKAHMRGLTEEVKMF 232 Thermosphaera aggr...
A1RXQ7    154 GTLVEIPPQKVPRVIGRRGSMVSMIEDLlGVKLIVGQNGRIVVVGDd---pQRVEIAVLAVRKIEAEAHTTGLTDRIKQF 230 Thermofilum penden...

Feature 1          
2BA0_A    213 IKRRK 217 Archaeoglobus fulgidus
ABK78159  219 LESRD 223 Cenarchaeum symbiosum A
A9A5C8    220 LDKKG 224 Nitrosopumilus maritimus SCM1
Q8TYC0    233 LKRLS 237 Methanopyrus kandleri AV19
B1L6N8    222 LSQEL 226 Candidatus Korarchaeum cryptofilum OPF8
RLG62217  231 LGVEL 235 Candidatus Geothermarchaeota archaeon
RLG67925  238 LSESL 242 archaeon
Q8ZVM8    223 IENYK 227 Pyrobaculum aerophilum str. IM2
D5U396    233 LERKL 237 Thermosphaera aggregans DSM 11486
A1RXQ7    231 IEERL 235 Thermofilum pendens Hrk 5

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