Conserved Protein Domain Family
NRDE-2

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pfam08424: NRDE-2 (This model is not part of the current CDD release)
NRDE-2, necessary for RNA interference
This is a family of eukaryotic proteins. Eukaryotic cells express a wide variety of endogenous small regulatory RNAs that regulate heterochromatin formation, developmental timing, defence against parasitic nucleic acids, and genome rearrangement. Many small regulatory RNAs are thought to function in nuclei, and in plants and fungi small interfering (si)RNAs associate with nascent transcripts and direct chromatin and/or DNA modifications. This family protein, NRDE-2, is required for small interfering (si)RNA-mediated silencing in nuclei. NRDE-2 associates with the Argonaute protein NRDE-3 within nuclei and is recruited by NRDE-3/siRNA complexes to nascent transcripts that have been targeted by RNA interference, RNAi, the process whereby double-stranded RNA (dsRNA) directs the sequence-specific degradation of mRNA.
Statistics
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PSSM-Id: 518252
Aligned: 95 rows
Threshold Bit Score: 185.605
Created: 15-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
XP_004363803  583 AELGRLNEFVRLHPRNVDGWMRLVEFQE-TLLslhsggfasffqqsaqttgksqatgkaqawNRSSAPRMA--VAEMQLA 659 
A0DU55        109 ERNLELQNQLQTNVNDLDIWKEFLLIQEkIAE------------------------------LQGYNEPLL--LANRRLS 156  Paramecium te...
XP_020431683  334 KRNAELNSAVERSPNDIDRWIELADYQDhfl-----------------------------vfSTKRSQRARipIVEKKLS 384 
XP_003292652  340 KENSELNYKVEQNPTDIDRWLDLVKFQEnfq-----------------------------qfSAKKS-RSKfsMYDRQLT 389 
Q54QP0        352 KKNSELNKLVEQYPNNIEYWIDLVKFQEnfq-----------------------------qfSRNVN-KSKtsMYEKQLS 401  Dictyostelium...
6_pfamImport    1 RKTKEFNKMSRDFPHDEKVWMAFADFQD-KIAstqs----------------------------kkgaRLQ--VLEKKIS 49  
XP_003549192  300 NKTREFNKLTREHPHDEKVWLAFAEFQD-KVAgmqr----------------------------qkgaRLQ--TLAKKIS 348 
Q9LSH4        276 NKTREFNRVTRERPHDAKAWLAFADFQD-KVSsmqs----------------------------qkgvRLQ--TLEKKIS 324  thale cress
XP_003385086  311 QRIADYNRRL-AGTNDVSLWLEFIAFQD-QLLhwgvspsgdged-------------kgvgeerkkklKAA--ITERKIS 373 
XP_004997320  367 RRTKEFNAALRRHPEDTTMWRTYIDFQD-DVFaveag--------------------------hsrkaVAL--LIDRKLA 417 
XP_004363803  660 ILERALREN---PASPELARRYLSLGHEL-WPSA---K-LAEQWERIIF-------------------QFS-THLVMWRE 711 
A0DU55        157 ILQKLEQVSevlADHPWVLAYKISLMQNLeLRNDelhKeIDNCWSELFS-------------------KYV-HIQPIWIL 216  Paramecium te...
XP_020431683  385 IYRSALAMN---PDSDELTIRYLRLAQEI-WDSE---Q-VRQLWSRVIErrsleysa---assssssnVDDlISEDLWRE 453 
XP_003292652  390 IYKNALMAN---PDSERLTIEYLKLASEI-WDQE---R-VLNLWNALIQkstqdfldyqqqvhsqhqaHPTiISEDLWRE 461 
Q54QP0        402 IYRNSLLHN---PDSEILTIEYLKLASKL-WDQQ---K-VLDLWNKVLSsss-------------sssSSSiISEKLWKE 460  Dictyostelium...
6_pfamImport   50 ILEKAMELN---PDNEDLLICLMKAYQSR-DSTA---V-LVERWERTLV-------------------QHS-DSCKLWKE 101 
XP_003549192  349 ILEKAVELN---PDNEEILLCLLKAYQMR-DSSD---V-LIARWEKILL-------------------QHS-GSYKLWRE 400 
Q9LSH4        325 ILEKAFELN---PDSEELLLALLKAYRSR-DNAD---V-LISRWEKALM-------------------QNS-ASYKLWRE 376  thale cress
XP_003385086  374 IYEKALGIF---PYSTDLIIGHMELVEEI-WDTE---K-LVEKWKDIVF-------------------YNS-NQSLLWIK 425 
XP_004997320  418 LYDEALKHN---PHDEDLFIGYLELCAQK-MTPD---D-LEAKWTRTLF-------------------LHP-NKHRLWQR 469 
XP_004363803  712 YLLFCQShVATFSMATCLSGYRKCFSTLSGINERTIReTLAvAetaaptlaaatiaiQRDLLDITSQLCDFLRDSGCPEK 791 
A0DU55        217 FLDHKLK-TEIFSATMLRIEANKHIANLQKLINETTRaQLVqLf-------------KRIYIELIQQIAFYESEMGFKER 282  Paramecium te...
XP_020431683  454 YTSFNMSnFAVFTIGDTRQHFARLVQLLLAKRRTLKPrDHGfMasv--------gkvEEALLGFVGQWARFERHAGYTER 525 
XP_003292652  462 YINFCLSnFNNFTVNKMKETITQVIRKLLIKRRSFKVkEKNfMerv--------qvvEESILQFLSQLTRFLHQAGYSER 533 
Q54QP0        461 YIEFCLSnFNDFKIEKIKETIITIIRKMLVKRRSFKVkDYNfMeni--------snlEESILQFISQLSKLLNQAGFSER 532  Dictyostelium...
6_pfamImport  102 FIHFCLGdFSRFKVSYLRKIYSHAVRALSSAFGRLCGqIDDmAktgsva--seltqlETGLVDIFVSLCRFEWQTGHQEL 179 
XP_003549192  401 FLHIVQRnFSRFKVSEVRKMYAHAIEALSASCSKHSRqVLQaAnpsspd--pvfvqlELGLVDIFLSLCRFEWQTGYREL 478 
Q9LSH4        377 FLCVVQGeFSRFKVSEVRRLYSYAIQALSSACSKRHRqVDTtSeplds----aaiqqELVLVDMLVSLCRFEWQAGYQEL 452  thale cress
XP_003385086  426 YIEFCLSrFSYFQTNSVIAIFTKSISTLTGIAERRLLsHYPeVd------------aERKILAIYVFLCYFLREAGYIER 493 
XP_004997320  470 YLAHSTAlLARFTVSSCQSKFHKCIETLDGLKEGSFAtHHLdKdv-----------aEETLLDVVFESCHFQAKAGCMER 538 
XP_004363803  792 AVALYQALVELCWFAPTTMdpvltpstkTTLkgllaF---FEPFWDS-SVpRFSDAGAAGWRAWHtqhvvnqtaaqhdip 867 
A0DU55        283 SVGILQALCEMNLFAPKHL---------QRTydleeKvkeFRNYWDM-NV-RTGEQNEYGWIDTP--------------- 336  Paramecium te...
XP_020431683  526 AIGMYQSLIEFNCFLPVHLeran-qqqqIlr--------sFKLFWEA-ELpRVGESEAQGWlnnrvdnetqltieemeel 595 
XP_003292652  534 VVGIYQALIELNCFEPIALsnep--qsvLlk--------eFKEFWVSnNYaKIGESNSIGWSNAYnqilndkinstgknd 603 
Q54QP0        533 VIGIYQSLIEFNCFEPIQLsnet--qatLlk--------eFKSYWSSlDYpKIGNPNSIGWSKSFtillnnsinnnnnkn 602  Dictyostelium...
6_pfamImport  180 ATGLFQALIEYNLFCPSLL---------LTEnskqrL---FEHFWNG-DGaRVGEDGALGWSAWLeteeenrqkaiatev 246 
XP_003549192  479 ATALFQAEIEFSLFCPPLL---------LTEqskhrL---FEHFWNS-GGaRVGEEGALGWSTWLekeeetrqrvmneel 545 
Q9LSH4        453 ATALLQAEVEFSIFSPSLL---------LTEqsklrL---FEHFWSS-NGaRVGEEGAFGWLLWLekeeenrqkilkees 519  thale cress
XP_003385086  494 AIATFQALIEFSLLCPIDEyp------aDGFypriaRrkgLESFWET-DEpRFGEEGAVGWTGWEhreeveptplglfps 566 
XP_004997320  539 AIACLQALVEFNLFMPSRVrs------pREAt---gF---LESFWES-NApRFGDPGARGVGHFIdqkrartdvpsl--- 602 
XP_004363803  868 vsgmr-------------------------------------------------assptppslsqedaefsvyaETLARQ 898 
A0DU55        337 --------------------------------------------------------------------------ELKDDF 342  Paramecium te...
XP_020431683  596 lreqeleeqqtiqrqqqi--------------------dqqdifnlkvenkpddvdvddldneqkqqqveeveeEGESND 655 
XP_003292652  604 ggledldnlsieeiekllkeqedlekq---------------selnqnnnenlftinesnfneqndddinqddqdinktk 668 
Q54QP0        603 nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnmdldnldnlsieeiekllkeqedqenqdnenifnithkskdl 682  Dictyostelium...
6_pfamImport  247 sfqdtekggwtgwseplsrvsensgmnqyteennaidegnveedmpenideedemaslmeklgmginadadveiKDTTVW 326 
XP_003549192  546 srenegggwtgwsepwskdnegianvehe-tmndvvmediqdeeeytevepevdtedllkmlgidmndgdggevNDTLTW 624 
Q9LSH4        520 sddnevggwtgwteqvsgrngddiasant-gevdvdrkgldeemedenskpeddteamlkllgidvntaasdevKDTSTW 598  thale cress
XP_003385086  567 dkydkllk--------------------------------------------espkdkegeteeeeedidikfvSGQPLN 602 
XP_004997320  603 --------------------------------------------------------------qqhhppttppelKGVTTW 620 
XP_004363803  899 PVERPLAasqsadgrTVDLWLNAELKrdsHHWRPLRmppqdadtlgnleaAATLDelieRDPEQVVLFEDISAFLFRITA 978 
A0DU55        343 IGYFDLSqqiqeqedQIQQFLSFQQL---KRWRPAN--------------QRFDIewieQNVDAAVIYEDIEPYLYIFND 405  Paramecium te...
XP_020431683  656 KMEVEVEvkernekkEWLEWSEKEMEselNRWIPSRvl----------eiPDEES----HDTDRLVLFDDIKDILFRMVK 721 
XP_003292652  669 esykNKNtpesihenKFINWGKNEIKkdtSKWLPLNidkat----lndemGEEND----QDTDRVVLFNDVFDLLFKFVR 740 
Q54QP0        683 nedddnennnnnqeeqedndsnsndndnnnnkfntwgkkeieldelkwkpldinnnlevnkevnendtervvlfndfyel 762  Dictyostelium...
6_pfamImport  327 -----------------MKWSEEETArcsGQWMPVRek------------sDNNDe---AQLSREVLFEDVSDYLFSLSS 374 
XP_003549192  625 -----------------IKWSKEESSrdcDQWMPVRgksgtt--spaneaDKTDEd---EQLLRVVLYEDVNEYLFSLST 682 
Q9LSH4        599 -----------------VKWFEEEVsrdhsqwmptrkagefssvegmgegedeeqlssvvlyedingylfslrskearls 661  thale cress
XP_003385086  603 -----------------KAWLKIESYrdeENSLPGRlsa--------pvnSKMNSd--sEDPEHITLFDDLIQIMFMMPD 655 
XP_004997320  621 -----------------ERWLEVETFreqQHWLPWRpne---------eeGEEEEd--cEDPDRCVIFDDVAGHLFRLST 672 
XP_004363803  979 PEIKEALLWRFVEFLGGRQL 998 
A0DU55        406 QESKLNLVSILLQQIGYPPI 425  Paramecium tetraurelia
XP_020431683  722 DEDKLYLVYQFLEFLGLPFS 741 
XP_003292652  741 DEIKIELIFQFLEFLGVPIV 760 
Q54QP0        763 lfrfvkeenklelvfqflef 782  Dictyostelium discoideum
6_pfamImport  375 EESRYYLLSHFIDFFGGPIS 394 
XP_003549192  683 TEARLSLLSQFIDFYGGKMS 702 
Q9LSH4        662 lvyqfidffgahispwtssn 681  thale cress
XP_003385086  656 PELHYLLLLEFVRFLGVPCS 675 
XP_004997320  673 PELKTDLVLGFVDFLGANVR 692 
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