4FLB


Conserved Protein Domain Family
CID_RPRD2

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cd17001: CID_RPRD2 
Click on image for an interactive view with Cn3D
CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 2
Regulation of nuclear pre-mRNA domain-containing protein 2 (RPRD2) is a CID (CTD-Interacting Domain) domain containing protein that co-purifies with RNA polymerase (Pol) II (RNAP II) and three other RNAP II-associated proteins, RPAP2, GRINL1A and RECQL5, but not with the Mediator complex. CID binds tightly to the carboxy-terminal domain (CTD) of RNAP II. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Statistics
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PSSM-Id: 340798
Aligned: 6 rows
Threshold Bit Score: 250.988
Created: 27-May-2015
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
CTD binding
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:CTD binding site [polypeptide binding site]
Evidence:
  • Comment:based on the interaction site between CTD (C-terminal domain of RNAP II) peptides and CIDs (CTD-Interacting Domain) of human RPRD1A and yeast Rtt103

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                       ###  #                                     #  ##  ##              
4FLB_A          5 ALESSLDRKFQSVTNTMESIQGLSSWCIENKKHHSTIVYHWMKWLRRSayPHRLNLFYLANDVIQNCKRkNAIIFRESFA 84   human
CAG32265       22 ALEASLDRKLQAVTNTMESIQGLSSWCLENKRHHNTIVYHWMKWLRRSafPHRLNLFYLANDVIQNCKRkNAIVFRDTFA 101  chicken
AAI55092       18 GFESALDRKFQAVSNTMESIQGLSSWCIENKKQHSLIVRCWMKWLRKSdaNHRLNLFYLANDVIQNCKRkNAIIYRTAFA 97   zebrafish
Q5VT52         22 ALESSLDRKFQSVTNTMESIQGLSSWCIENKKHHSTIVYHWMKWLRRSayPHRLNLFYLANDVIQNCKRkNAIIFRESFA 101  human
XP_004917647   13 ALEASLDRKMQSVTNTMDSIQSLSSWCIENKKYHSTVVHHWLKWFRRSgfGHRLNLFYLANDVIQNCKRkNAIVYREAFA 92   tropical claw...
XP_014349601   14 ALEGALDRKLQTVTNTMESIQGLSSWCVENKKHHSSIVQHWLKCLRRSdySHRLNLFYVANDVIQTCKRrNAIVFRESFA 93   coelacanth
Feature 1                             #   #                    
4FLB_A         85 DVLPEAAALVkDPSVSKSVERIFKIWEDRNvYPEEMIVALREALS 129  human
CAG32265      102 EVLPEAASLVkDPSVSKSIERIFKIWEDRNvYPEETILALKEALS 146  chicken
AAI55092       98 EVLPDAALLVkDAKVCKSVERIFSIWQERSvYPEELISELKANLL 142  zebrafish
Q5VT52        102 DVLPEAAALVkDPSVSKSVERIFKIWEDRNvYPEEMIVALREALS 146  human
XP_004917647   93 EVLPEAASLVkDASVAKSVERIFKIWEERNvYQEDVIANFRSSLN 137  tropical clawed frog
XP_014349601   94 SVLPEAAALVkDASIRKSVERIFTIWEERNvYPEETIASFKAGLV 138  coelacanth

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