Conserved Protein Domain Family
TNRC6-PABC_bdg

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pfam16608: TNRC6-PABC_bdg (This model is not part of the current CDD release)
TNRC6-PABC binding domain
TNRC6-PABC_bdg is a natively unstructured region on the higher eukaryote TNRC6 subset of GW182 proteins that carries the binding motif for the interaction with Polyadenylate-binding protein 1, PABC. TNRC6 are trinucleotide repeat-containing gene 6 proteins required for miRNA-mediated gene silencing that are localised to the P bodies (processing bodies). P bodies are cytoplasmic mRNP aggregates that are involved in general mRNA translation repression and decay, including nonsense-mediated decay. Thus GW182 proteins are essential for microRNA-mediated translational repression and deadenylation in animal cells being a major component of miRISCs. The interaction motif that binds to PABC is ShNWPPEFHPGVPWKGLQ. This region lies between a Q-rich region and the RRM, or RNA-recognition motif, pfam13893.
Statistics
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PSSM-Id: 522434
Aligned: 7 rows
Threshold Bit Score: 282.225
Created: 17-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_063560858 1316 LPDLQTKGPIPGYSSGFSSGGMDY-----GMVGGKEA-GTESRFKQ-WT--SMMEGL-PSVATQEANMHKNG---AIVAP 1382
3_pfamImport    1 SPNTFAPYPLAGLNPNMNVSSMDMt----GGLAGKDPsQSQSRLPQ-WThpNPMENVsGAASPLDQNPGKHGrprPRPAP 75  
1_pfamImport    1 SPNSYSPYPLAGLNPNMNVSSIDVs----GGLSMKDTsQSQSRLPQ-WThpNSMENLsGNSSPLEQNLSKHG---AIPAG 72  
XP_016854047 1441 QMSAFSNFPI-GSNSNLNV-NMDM-----GSM--KEP---QSRLRK-WT---TVDSVsTNVPPLDQNASKNG---AISGG 1501
XP_040046310 1364 ALGSFSNFPL-SLNPNLNV-PLDMgg--gGAVSYKEP--PQSRLKKlWA-----------TDPLEQN-SKPG---AMSSG 1422
XP_029692847 1313 PLGSYSNFPL-SLNSNLNV-PLDLgvssgGALSYKEP--PQSKLKKlWA-----------TDPLEQN-SKPG---AMSSG 1373 torafugu
XP_046758063 1379 SPNTFAPYPLAGLNPNMNVNNMDIt----GGLSVKDTsQSQSRLPQ-WThpNSMDNLsSAASSLDQNSSKHG---AIPGG 1450 chicken
XP_063560858 1383 GKTr------GGSPYNQFDIIPGDTLGGHT-----GPAGDSWLpAKSPPTNKIgSKSSNASWPPEFQPGVPWKGIQNIDP 1451
3_pfamImport   76 SSVlra-kssIDDSYGRYDLIQNSESPASPp----VAVPHSWS-RAKSDSDKI-SNGSSINWPPEFHPGVPWKGLQNIDP 148 
1_pfamImport   73 PSLgppgkppMEDSYSPYNLIPSSESPASP-----LVAPDSWT-QGKASNDKI-SNGTNINWPPEFCPGVPWKGLQNIDP 145 
XP_016854047 1502 FRLe-------EASFVPYDFMNGSNSPASPp----GPIGEGWS-RAKSP-----SGSSSVNWPPEFRPGEPWKGYPNIDP 1564
XP_040046310 1423 LRLe-------DSPF--YDFLSPGASSLSPpgqslGSVGDGWPpRANSPP----PHGNTVTWPPEFRPGEPWKGYPNIDP 1489
XP_029692847 1374 LRLe-------DSPF--YDILSSGPSPLSPpgqsmGSVGDSWPpRANSPP----PHGNTVTWPPEFRPGEPWKGYPNIDP 1440 torafugu
XP_046758063 1451 LSIgppgkssIDDSYGRYDLIQNSESPASPp----VAVPHSWS-RAKTDSDKI-SNGSSINWPPEFHPGVPWKGLQNIDP 1524 chicken
XP_063560858 1452 ESDPYVTPGSVLGGTATSP-IVDTdhqllrdNTTG--SNSSLNTSLPSPG--AW-PYSAsd--nSFTNVHS-T--SAKFP 1520
3_pfamImport  149 ENDPDVTPGSVPTGPTINTtIQDV-------KNAGqrHPASRQGLERAAQgfAWaLLGA-----SLPLGRRrQspLRKLS 216 
1_pfamImport  146 ETDPNVTPGSVPSGPTINTnIQDVnryllrdRSGGssPPPSQNGALPSAD--AW-PVSAht--sSFSLSPSaTdsAGKLS 220 
XP_016854047 1565 ETDPYITPGSVTNNLSINT-VREAdhl--rdRNGG--SSSSLNTALPSTS--AWsSIRAsnynvSLSSTAQsTs-SARNS 1636
XP_040046310 1490 ETDPYMTPGSVINSLSINT-VRDTdhl--rdRNNG--QSSSLNTMMPSTS--AWsSIRAsshsgSLTSTAQsT--SARPS 1560
XP_029692847 1441 ETDPYVTPGSVINNLSINT-VRDTdhl--rdRNNG--PSSSLNTTMPSNS--AWsSIRAsshsgSLTSTAQsT--SARPS 1511 torafugu
XP_046758063 1525 ENDPDVTPGSVPTGPTINTtIQDVnry--llKSGGssPTSSQNATLPSSS--AW-PLSAsgyssSFSSIASaPsiAGKLS 1599 chicken
XP_063560858 1521 D-YKSTWSP----DPIGHNPTHLSNKMWKNhisSR--NTTPLPRPPPGLTNPK----PS---SPWSSTAPrs------vr 1580
3_pfamImport  217 D-MKSTWSS----GPASHTQASLSHELWKV---PR--NTTAPTRPPPGLTNPK----PS---STWGASPL---------- 269 
1_pfamImport  221 D-MKSTWSP----GPISHTQASLSHELWKVpqgPR--NTTAPTRPPPGLTNTK----LS---STWSGSALgl------vp 280 
XP_016854047 1637 DsSKPTWSTasanGGSSGSSTSLAHELWKVplpPK--SVAAPSRPPPGLTGQK----GPl--SSWENPLQrfggggggga 1708
XP_040046310 1561 E-SK--WSP----GGGSVSNSSLAHELWKVpltPKahSVAAPSRPPPGLTSQK----PSaasSGWDGSALrl-------g 1622
XP_029692847 1512 E-SK--WSP----SGGSASNSSLAHELWKVplpPKalSVAAPTRPPPGLTSQKlssaS----SGWDSSALrl-------g 1573 torafugu
XP_046758063 1600 D-IKSTWSS----GPISHTQASLSHELWKV---PR--NTTAPTRPPPGLTNTK----PS---STWGASPL---------- 1652 chicken
XP_063560858 1581 GWGtqdSRLASASTWSDGGSVRP 1603
3_pfamImport  270 GWT---SSYSSGSAWSTDTSGRT 289 
1_pfamImport  281 GWS---SSYSSGTTWSTDSSGRT 300 
XP_016854047 1709 GWSaseGRYTPGSAWGESSSGRI 1731
XP_040046310 1623 GWGaseSRYTPGSSWGDSSSSSS 1645
XP_029692847 1574 GWGsseSRYTPGSSWSDSSSSGR 1596 torafugu
XP_046758063 1653 GWT---SSYSSGSAWSTDSSGRT 1672 chicken
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