<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP23354

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMVEKRGSDEAHLSSLYGDGGICTISSKSVVAFTRTSTRQDNYRHRIPIYTVCVMDLNCPYEPHVIVESASHVSSLVFSSDGSQLLVVRSMGTVQLFSKGAGLHDWSVTHTCDWGGEDILHINFFHGGIRTCLHASDVKVHALYTEKFSAQPHKPSLVDHGQCAVNGFFAVTASGLLLVCAMTHEGNVMTEQKVVLGHTRDNFTVATAALAPSGHIHIATWKPEMIKCWRIELKMIEEDSGGGRGDLKVKVQAAQSFCPFRSGMAWHNTQKNEGLVQVTCLRYTEMEDPNSLLVALTVSQVGESVQPQQTPNGTPISSVLHMVQRYQLQEQVKPLLKLFKPMAESTGVTTKEWVCVGEWVSNSSVITLGTAPRHLLPGPPGAQLPFIITAATADSSIYAINRDSMQQMSYHNLQGTRGNNDDQPVKRIATDRRMVCLAHTWSGFSLLAMDSTGGLHFFTLMRPADVGPQWAISVILLLEFALVSGNDWWDLLVSTPPSSIHTLTDRLTDTFLLHSPPIIQHLHTRFLVMKTSMLRLAGSQQQKAIEARLQAQLTAIQQLFRSLRPVTCDVATAEKNISVSLQAFQESRPSLDTLDIEKALDLFCSSVNIKDCQVDPGLLQNLQPLLQFAADLALFILFMLAQNSKFELARDAKIVQSLREILFVSRLWHRQNKLVLPQMFHKTQSVDVWAQIYKLLTRLAQILPGEPDSSLIAIVVWVILPNSKAESVTVKIVPESRISPSADNSTTSQDQVVIGTGSKRGVLFILGIIFASGLFVFLLVLITVVCVWAQQTRGYVIGRDPLYDGSVEVAGNEEIQLKDHSNGGIGKCVKQPDSQKQENSHNLSFVNNSSPPLKTIVVCNQVNGENTDLKSGPPDEVLCSQSVGDLKATHPQNYGTLSRTRLLSSVDEDGYHIDNLGFDLDGDNSNCDFLPTSSSPETSLLDDNTRNLLEKLEEELQKPSADSTTSPLASPKTNSASGSRESSLQRQLTKEDSFQGLPPLNSFDNYLTLVRLDSTTSLSSSSLEEARKQWQSIEEEEENENLGNKLEIDNKAKDP
Length1054
PositionTail
OrganismPenaeus vannamei (Whiteleg shrimp) (Litopenaeus vannamei)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Crustacea> Multicrustacea> Malacostraca> Eumalacostraca> Eucarida> Decapoda> Dendrobranchiata> Penaeoidea> Penaeidae> Penaeus.
Aromaticity0.06
Grand average of hydropathy-0.170
Instability index45.65
Isoelectric point5.78
Molecular weight116128.60
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the regulated transcription of nearly all RNA polymerase II-dependent
genes. Mediator functions as a bridge to convey information from gene-
specific regulatory proteins to the basal RNA polymerase II
transcription machinery. Mediator is recruited to promoters by direct
interactions with regulatory proteins and serves as a scaffold for the
assembly of a functional preinitiation complex with RNA polymerase II
and the general transcription factors. 


ECO:0000256	RuleBase:RU364149

GO - Cellular Component
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP23354
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.56|      26|     216|     326|     351|       1
---------------------------------------------------------------------------
  326-  351 (43.68/29.22)	QLQEQVKPLLKLFKPMAEST.GVTTKE
  547-  573 (37.88/24.38)	RLQAQLTAIQQLFRSLRPVTcDVATAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     304.45|      98|     429|     353|     511|       2
---------------------------------------------------------------------------
  402-  511 (160.83/226.82)	DSMQQMSYHNLQGTrgNNDDQPVKRIatdrrMVC....LAHT..WSGF..SLLAMDSTGGLHfftLMRPADVG....PQWAISV......ILLLEFALVSGNDWWDLL.VSTPPSSihTLTDRLTDTFL
  832-  948 (143.62/86.33)	DSQKQENSHNLSFV..NNSSPPLKTI.....VVCnqvnGENTdlKSGPpdEVLCSQSVGDLK...ATHPQNYGtlsrTRLLSSVdedgyhIDNLGFDLDGDNSNCDFLpTSSSPET..SLLDDNTRNLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.69|      25|     430|     288|     313|       3
---------------------------------------------------------------------------
  288-  313 (39.87/30.31)	PNSLLVALTVSQVGES.VQPqQTPNGT
  720-  745 (38.83/24.35)	PNSKAESVTVKIVPESrISP.SADNST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.98|      14|      48|     961|     975|       4
---------------------------------------------------------------------------
  961-  975 (20.43/15.79)	DSTTSpLASPKTNSA
 1012- 1025 (23.55/12.51)	DSTTS.LSSSSLEEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.39|      20|     802|       2|      22|       5
---------------------------------------------------------------------------
    2-   22 (33.31/27.27)	VEKRGSDEAHLSSlYGDGGI..C
  806-  827 (32.08/20.89)	VEVAGNEEIQLKD.HSNGGIgkC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.40|      18|     141|     627|     644|       8
---------------------------------------------------------------------------
  627-  644 (31.56/18.16)	FAADLALFILFML......AQNSK
  769-  792 (23.84/12.16)	FASGLFVFLLVLItvvcvwAQQTR
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP23354 with Med16 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NSNCDFLPTSSSPETSLLDDNTRNLLEKLEEELQKPSADSTTSPLASPKTNSASGSRESSLQRQLTKEDSFQGL
2) SSSLEEARKQWQSIEEEEENENLGNKLEIDNKAKDP
923
1019
996
1054










Molecular Recognition Features






MoRF SequenceStartStop




1) EEARKQWQSIEEEEENENLGNKLEIDN
2) FDNYLTLVRLD
3) YHIDN
1023
1002
910
1049
1012
914