3Q2S,3P5T


Conserved Protein Domain Family
RRM_CFIm68

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cd12643: RRM_CFIm68 
Click on image for an interactive view with Cn3D
RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 68 kDa subunit (CFIm68 or CPSF6) and similar proteins
This subgroup corresponds to the RRM of CFIm68. Cleavage factor Im (CFIm) is a highly conserved component of the eukaryotic mRNA 3' processing machinery that functions in UGUA-mediated poly(A) site recognition, the regulation of alternative poly(A) site selection, mRNA export, and mRNA splicing. It is a complex composed of a small 25 kDa (CFIm25) subunit and a larger 59/68/72 kDa subunit. Two separate genes, CPSF6 and CPSF7, code for two isoforms of the large subunit, CFIm68 and CFIm59. The family includes CFIm68, also termed cleavage and polyadenylation specificity factor subunit 6 (CPSF6), or cleavage and polyadenylation specificity factor 68 kDa subunit (CPSF68), or protein HPBRII-4/7. CFIm68 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a central proline-rich region, and a C-terminal RS-like domain. The N-terminal RRM of CFIm68 mediates the interaction with CFIm25. It also serves to enhance RNA binding and facilitate RNA looping.
Statistics
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PSSM-Id: 410048
Aligned: 14 rows
Threshold Bit Score: 141.409
Created: 13-Sep-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
polypeptide
Conserved site includes 15 residues -Click on image for an interactive view with Cn3D
Feature 1:polypeptide substrate binding site [polypeptide binding site]
Evidence:
  • Structure:3Q2S; Human CFIm68 complexes with CFIm25; contacts at 4A.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1             ######                 #  ########                                   
3Q2S_C     70 ALYIGNLTWWTTDEDLTEAVHSLGVndilEIKFFENRANGQSKGFALVGVGseASSKKLMDLLPkrelhGQNPVVTP 146 human
Q6DDW4     82 ALYIGNLTWWTTDEDLTDAVHSLGVndilEIKFFENRANGQSKGFALICVSseSSSKKLMDLLPkremhGQKPIVTP 158 African clawed frog
Q6NWC6     82 ALYIGNLTWWTTDEDLTDAIRSIGIndvlEIKFFENRANGQSKGFALVCVGsdSSSRKLMDLLSkrelhGQNPIVTP 158 zebrafish
EFX80351   91 QLYVGNLTWWTTDADVENAISAIGVqdlvEVRFHENRANGQSKGFCVITVGseISARQCMDKLPkkdlhGQTPIVTF 167 common water flea
CCD58292   64 SVYVGNLTWWTTDLDLLEAASGIGIndviEIKFHENRQNGQSKGFCVMVFGseQSMRLAMDKFPkidlhGQNPVVTS 140 Schistosoma mansoni
Q9VSH4     94 QLYVGNLTWWTTDQDIANSLRDIGVsdlqEVKFFENRANGQSKGFSVISLGseSSLRAVLDQLPkkemhGQAPVVTY 170 fruit fly
EEC08601   80 GIYIGNLTWWTTDQDVTDAISAVGVndvlDIKFFENRANGQSKGFCIVTLGsdSSFRAVMDKLPkkelhGQNPVVTP 156 black-legged tick
EEN64482   64 SVYIGNLTWWTTDADLSEAILSVGVkdllEIKFYENRANGQSKGFCVCHFGseQSPRMLMDKLPrkdlhGQNPVVRP 140 Florida lancelet
EDO36855  103 PLYVGNLTWWTTDQQLTEALQECGVtdliNIKFFDNRTNGQSKGFAMIELGsdKSIEMVTERLPkfdieGQNPVVTP 179 starlet sea anemone
3P5T_L      3 ALYIGNLTWWTTDEDLTEAVHSLGVndilEIKFFENRANGQSKGFALVGVGseASSKKLMDLLPkrelhGQNPVVTP 79  human

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