3CDI,3H1C,3GCM


Conserved Protein Domain Family
RNase_PH_PNPase_2
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cd11364: RNase_PH_PNPase_2 
Click on image for an interactive view with Cn3D
Polyribonucleotide nucleotidyltransferase, repeat 2
Polyribonucleotide nucleotidyltransferase (PNPase) is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally, all members of this family form hexameric rings. In the case of PNPase the complex is a trimer, since each monomer contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction and in quality control of ribosomal RNA precursors, with the second repeat containing the active site. PNPase is part of the RNA degradosome complex and binds to the scaffolding domain of the endoribonuclease RNase E.
Links
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Statistics
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PSSM-Id: 206769
Aligned: 50 rows
Threshold Bit Score: 321.418
Created: 20-Oct-2011
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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active sitetrimerRNase E
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:3GCM: Escherichia coli polyribonucleotide nucleotidyltransferase binds magnesium and citrate
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                   # #               
3CDI_A    329 MIRGLDVRTGvLPRTHGSALFTRGETQALVTATLGtarDAQVLDEL-----MGERTDTFLFHYNFPPYSVGETGmvGSPK 403 
3GCM_A    323 MIRGLDVRTGvLPRTHGSALFTRGETQALVTATLGtarDAQVLDEL-----MGERTDTFLFHYNFPPYSVGETGmvGSPK 397  Escherichia coli ...
AEQ01060  360 ALRNISCEVDvFKPLHGSALFQRGQTQVLCSVTFDsleSSLKTDVIts-alSGVKDKNFLLHYEFPPYATNEIGrtGGAN 438  zebrafish
CAJ38806  311 EIRPINCGVDlFSPLHGSAMFQRGQTQVLCTVTFDsldSAAKVDAIta-lmAGMKEKNFFVHYEFPPYATNETGrtGFAG 389  Dumeril's clam worm
AAL28609  312 QLRNISCQVDmYKPLHGSALFQRGQTQVFCTVSLDsqeSAMKLDSLaaldsGGLKAKNFMLHYEFPPYATGEVGriGPVG 391  fruit fly
XP_788673 546 EMRDITCSVDlYKPLHGSALFQRGQTQVFCTVTFDsieSALRADPVw---qEDIREKNFMLHYEFPPYATNETGrtGGIN 622  purple urchin
AAI23081  372 SLRNINCEVDlFKPLHGSALFQRGQTQVLCTVTYDsieSSMKSDHItt-alSGVKDKNFMLHYEFPPYATNEIGkvTGIN 450  western clawed frog
ADK26666  348 SLRDIKCEVNmFKMLHGSALFQRGQTQVLCTVTFDsleSSVKSDVIst-avSGIKDKNFMLHYEFPPYATNEIGkvTVMN 426  Zonotrichia albic...
AEO33918  377 ALRDISCQIDlFQPLHGSALFQRGQTQVLCTVAFDslhSVLRSDPVsv-itGGIKEKNFMLHYEFPSYATNEIGrtGPVG 455  Amblyomma maculatum
Q5RCW2    366 SLRNVSCEVDmFKTLHGSALFQRGQTQVLCTVTFDsleSGIKSDQVit-aiNGIKDKNFMLHYEFPPYATNEIGkvTGLN 444  Sumatran orangutan

Feature 1      #   #                                 ###                                      
3CDI_A    404 RREIGHGRLAKRGVLavmpdmdkFPYTVRVVSEITESNGSSSMASVCGASLALMDAGVPi---kAAVAGIAMGLVkeg-- 478 
3GCM_A    398 RREIGHGRLAKRGVLavmpdmdkFPYTVRVVSEITESNGSSSMASVCGASLALMDAGVPi---kAAVAGIAMGLVkeg-- 472  Escherichia coli ...
AEQ01060  439 RRELGHGALAEKALRpvi--pssFPFTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPi---sSPVAGVAIGLIseahp 513  zebrafish
CAJ38806  390 RRELGHGALAEKALKnvi--psdFPFTIRLSAEVLESNGSSSMATVCGGSLALMDAGSSklrpkGSSLGVACGKWltrsd 467  Dumeril's clam worm
AAL28609  392 RREMGHGALAERSLLptl--pndYPFTVRLTSEVLESNGSSSMASVCGGSLALMDAGVPv---sAPAAGVAIGLVtkfen 466  fruit fly
XP_788673 623 RRELGHGALAEKGLRpvv--psdYPFTIRLTSEVLESNGSSSMATVCGGSLALMDAGVPv---sHPVAGVAIGVItetep 697  purple urchin
AAI23081  451 RRELGHGALAEKALRpvi--pkdFPFTIRVTSEVLESNGSSSMASACGGSLALMDAGVPi---sAAVAGVAIGLItkysp 525  western clawed frog
ADK26666  427 RRELGHGALAERALKpvi--pqdFPFTIRVTSEVLESNGSSSMASACGGSLALMDAGVPv---sNAVAGVAIGLVtkcsq 501  Zonotrichia albic...
AEO33918  456 RRELGHGALAENALRplv--pkdFPFTIRLTSEVLESNGSSSMASVCGGSLALMDAGVPi---sAAAAGVAVGLVtvpdp 530  Amblyomma maculatum
Q5RCW2    445 RRELGHGALAEKALYpvi--prdFPFTIRVTSEVLESNGSSSMASACGGSLALMDSGVPi---sSAVAGVAIGLVtktdp 519  Sumatran orangutan

Feature 1                        #     # #           # #                                    
3CDI_A    479 ------dnYVVLSDILGDEDHLGDMDFKVAGSRdGISALQMDIKIEGitkeiMQVALNQAKGARLHILGVMEQAINAP 550 
3GCM_A    473 ------dnYVVLSDILGDEDHLGDMDFKVAGSRdGISALQMDIKIEGitkeiMQVALNQAKGARLHILGVMEQAINAP 544  Escherichia coli E2...
AEQ01060  514 drpseiesYRLLTDILGIEDYNGDMDFKMAGSSkGITALQADVKIPGlplkiVMEAIQQATVAKREILGIMGQCISRP 591  zebrafish
CAJ38806  468 d-hgnvsdFKVLTDLLGIEDYMGDMDFKYAGTSkGVTALQADVKVPGlplkvIMEAEERAWEGKTEILSIMWNCLSQH 544  Dumeril's clam worm
AAL28609  467 ddtkhlqdYRILTDILGIEDYMGDMDMKVAGTRkGFTAIQADLKIPGiplkvVMESLQKATDAKSNILDIMSEAIREP 544  fruit fly
XP_788673 698 ddiftikdHRIVTDLLGIEDYMGDMDMKLAGSKkGITALQTDVKVPLpm-kiIVEAIQAGTAAKSKILNIMASSIRKP 774  purple urchin
AAI23081  526 dkngeiqdYRLLTDILGIEDYNGDMDFKMAGTSkGITALQADIKIPGlplkiVMEAIQQATVAKKEIIQIMNKVISKP 603  western clawed frog
ADK26666  502 g-kgdiedYRLLTDILGIEDYYGDMDFKMAGTNkGITALQVDLKLPGipikiVVEAIQQATAAKREILQIMNQTLAKP 578  Zonotrichia albicollis
AEO33918  531 ecsyelsdYRLLTDILGIEDYLGDMDFKMAGTKkGITALQADIKIPGlplkvVMEAIQQATEGKSEILKIMNEVISKP 608  Amblyomma maculatum
Q5RCW2    520 e-kgeiedYRLLTDILGIEDYNGDMDFKIAGTNkGITALQADIKLPGipikiVMEAIQQASVAKKEILQIMNKTISKP 596  Sumatran orangutan

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