2L9W


Conserved Protein Domain Family
RRM_occluded

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pfam16842: RRM_occluded 
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Occluded RNA-recognition motif
This family is an unusual, usually C-terminal, RNA-recognition motif found in fungi. In yeast it is the fourth RRM domain on the essential splicing factor Prp24. Structurally, it has a non-canonical RRM fold with the expected beta-aloha-beta-beta-alpha-beta RRM-fold is flanked by N- and C-terminal alpha-helices. These two additional flanking alpha-helices occlude the beta-sheet face. The electropositive surface thereby presented is an alternative RNA-binding surface that allows both binding and unwinding of the U6 small nuclear RNA's internal stem loop, at least in vitro.
Statistics
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PSSM-Id: 318940
View PSSM: pfam16842
Aligned: 48 rows
Threshold Bit Score: 91.7896
Threshold Setting Gi: 930144184
Created: 31-Jul-2016
Updated: 4-Aug-2016
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2L9W_A        21 ETLICLFPLSDKVSPSLICQFLQEEihi--neK----DIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRS 94
gi 74693522  302 pNILGLFPISDTLSKECIRSLVKEKapf-ledN----MLEDILLVSDHEGALLIFCDEKTAAKVALALHMSTYGKVILNC 376
gi 74690154  306 PKVVGIYPLSDQITPDQILAFITEKaqi--rpP----DITKVLLVSDHEGALIIADKEAITAKVSLAINGYKFKNRILKC 379
gi 366991289 307 EKIISLYPMSDRVSKFELRSFIEEKchmydniE----HIKDIHLVPDHNGALLVLSNNNIAAKYSMILNGLSFHNKSISC 382
gi 410076436 297 SAIISLFPLTDKISRDQIRALLLEKa------GisdeDIMHIYCVSDYVCSLVILKNTKLQAKCIMAMDGINFQNKTLRC 370
gi 403217626 311 LNIFSLYPLSDRVSKEQIRILLKDScsv--etE----SIKDIFLVTDLKGALVDCNDDKVAAKCIMKLDNTTFQNKTINC 384
gi 365991313 311 ARIISLYPLSDRVTKSNIKSFLHETfpnrsvgD----EMEDIYLVSDKNGAFIILKDEKLAGIYLMGLNMKMFHNKVIHC 386
gi 156838686 302 DLMISLYPLSDKTSKSQVSELLTTNl------NiqeaDINKILLVSDYQSAIVIMKNRQIAAKCLMALDGIQFQKKKLHC 375
gi 367004501 322 DMFISIFPLADKITKSQISKLINEKtni--peH----SIMKIYLVADYNGCIVKFNNSRYSAKCIMALDNSTYNNKNIRC 395
gi 255712257 320 GSVLGIYPLSDKIPTPQIRCFIVEQakv--kkE----DIKKIYLVPDHEGALVVARSGPIAAKISLSIHGSLFNKRTIMC 393

                 ....*....
2L9W_A        95 GTINDMKRY 103
gi 74693522  377 SDVRSLKQH 385
gi 74690154  380 VSAHELSLH 388
gi 366991289 383 GSVQDLKNH 391
gi 410076436 371 GTVFDLKNS 379
gi 403217626 385 GSVNDLKNS 393
gi 365991313 387 GTVNDLKgn 395
gi 156838686 376 TTIDGMKRS 384
gi 367004501 396 SNINGLKKS 404
gi 255712257 394 CSPKELQRQ 402
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