<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 MDP27234

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDPVYEIDWQADVNQITLGHGDIVECAWSASNFFAFTTEKNNQGSVTQYLHILNPNQPWGVFSTKYNDGAITCLQWDHTGTRLVSGDNHGLCCLWTMSNSLCNVWTHQNKHNIFLEGEEILSLGWLHNGARFLFHIDKMESSNLGEKFDRAKFWPTVMQHGGKAMEGFIVVTGSGLAAVRLLLVDGESVESQFRLNVMCHQQIADIAFTSQGKVVVMTTDSEIQHFIQFHEIQLTYNTQDHLISHEVSALPSLQLRCASEEHSPYTYISHAHFVSRENQDHVLICVSGPTGSKFESWLIRKESVQLHRIFQQNTNPVSTTPDVSKCWHYVTNSTHLPQVLNFSIPTLPIDASSSENKVSQESKFFCGFCFAVALADNTIQILHRLFLQVLVTQHLPVTTNSQETTPGKAMKMTQQFGVRHVSFSTLSCAMVCFIAADKHGRLLLYRIPPWLTTPNRTNTMQSLKQLLQLMLYCLVSGKEWWEILLHVHPNLVEPLVKQLSVECGNQTSAVQQVLELRLQALKISIYHITASPVATDLHLKMLFQAISLVFRSLVRPHQQVGGEEIDPATKLQNISRTSTETNIDQLVQNVDTDPQTLQSMQQLIQWVADVALYLLASVPLYKQANRPGYSLYWDRDWLSLLREMLVLIRVWGLLKSACSPVFNVLDSRMDVLSHVFKLVTQLWMASTDDHRMTDLPTSLINECSALPFHIIIPPLEPTPPPNSVLSQMRNFSGTRRFTFGETPQDSYIMLSRQHMMDHVAVAGSSGKVDSLRRIFLGKSPNQELKECVRCGVTTTCNNLLRSTLKVWDQRFVSSCVCGGHWKKLNSHPVPLH
Length832
PositionTail
OrganismCiona intestinalis (Transparent sea squirt) (Ascidia intestinalis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Tunicata> Ascidiacea> Phlebobranchia> Cionidae> Ciona.
Aromaticity0.09
Grand average of hydropathy-0.111
Instability index41.66
Isoelectric point6.62
Molecular weight94137.88
Publications
PubMed=12481130
PubMed=15114417

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
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
GO - Biological Process
positive regulation of transcription, DNA-templated	GO:0045893	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27234
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.75|      22|     135|     452|     476|       1
---------------------------------------------------------------------------
  452-  476 (35.42/29.45)	TTPnrtNTMQSLKQLLQ....LMLYCLVS
  592-  617 (33.33/19.04)	TDP...QTLQSMQQLIQwvadVALYLLAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.43|      41|     388|     371|     432|       2
---------------------------------------------------------------------------
  307-  353 (59.70/36.93)	HRIFQQ.........NTNPVSTTPdvSKCWHyVTNSTHLPQVlNFSipTLPIDASS
  383-  432 (68.73/47.51)	HRLFLQvlvtqhlpvTTNSQETTP..GKAMK.MTQQFGVRHV.SFS..TLSCAMVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.17|      21|     123|     494|     554|       4
---------------------------------------------------------------------------
  531-  554 (27.47/70.61)	SPVATDLHLKMlfQAISLVFRsLV
  659-  679 (37.70/ 6.66)	SPVFNVLDSRM..DVLSHVFK.LV
---------------------------------------------------------------------------




































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 MDP27234 with Med16 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




NANANA









Molecular Recognition Features






MoRF SequenceStartStop




NANANA