<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 MDP05535

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMDVTGPETDWRSTTFRQKLVSQIVPSRGQIWIQFTRGVMEKGHDDAMRKAGVAHNKSSKDMESHVFMKAKTREEYLSLVARLIIHFRDIHPMNALQNLTGGPPAGAPGMGMASRAQGAPMSGMSGIGPMGQQMSLPGQQQPPGTSGMAPHGMPGVSAATQQSKSSAGPAAASSSSSASSSGPSCSDGSFRADDHRTYGPRWDANKTTVPAYHRCVCYTAKLHSFGRTANATVLMAISNKVDVKYCPESLKSNTGGTVVMGENRKLNTLISCRSEDTLLSVSQNNITMMSSPSPVXQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSSQSEEQQYLEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLDILTDPSKRCPLKTLQKCEIALEKLKNDMAVPTPPPPAVPPTKQQYLCQPLLDAVLANIRSPVFNHSLYRTFMPAMTAIHGPPITAPVASPRKRKYEEDERQTIPNVLQGEVARLNPKFLVNLDPSHCSNNGTVHLICKLDDKNLPNVPPLQLSVPADYPDQSPLWIKNPRQYGMRMLA
Length606
PositionTail
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.04
Grand average of hydropathy-0.582
Instability index71.14
Isoelectric point9.50
Molecular weight65464.96
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:RU364148

GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP05535
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.65|      21|      27|     291|     317|       1
---------------------------------------------------------------------------
  296-  317 (40.42/16.71)	QAQTPQSMpPPPQPQPSPQPGQ
  351-  371 (37.23/ 8.35)	AARTPQNF.SVPSPGPLNTPGN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     133.26|      25|      27|     117|     141|       2
---------------------------------------------------------------------------
  117-  135 (28.80/ 7.86)	..........G.APMSGMSGIGPMGQQMSL
  136-  164 (30.69/ 8.84)	PGQQQPpgtsGmAP.HGMPGVSAATQQSKS
  165-  189 (37.95/12.61)	SAGPAA....A.SSSSSASSSGPSCSDGSF
  327-  348 (35.83/11.51)	SSGPAP......SPSSFLPSPSPQPSQS..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.78|      23|      27|     420|     446|       3
---------------------------------------------------------------------------
  411-  438 (35.18/19.83)	DKNEdrkkdLSKMKSLLDILTDPSKRCP
  443-  467 (38.60/14.61)	QKCE...iaLEKLKNDMAVPTPPPPAVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.65|      20|      26|     194|     217|       4
---------------------------------------------------------------------------
  194-  216 (27.59/40.20)	HrTYGpRwDANKTTVPAYHRCV....C
  222-  245 (31.06/17.03)	H.SFG.R.TANATVLMAISNKVdvkyC
---------------------------------------------------------------------------




































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 MDP05535 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MNALQNLTGGPPAGAPGMGMASRAQGAPMSGMSGIGPMGQQMSLPGQQQPPGTSGMAPHGMPGVSAATQQSKSSAGPAAASSSSSASSSGPSCSDGSFRADDHRTYGPRWDA
2) TLLSVSQNNITMMSSPSPVXQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSSQSEEQQYLEKLKQ
3) YCPESLKSNTGGTVVMGENRKLNTLISCRS
92
276
244
203
395
273










Molecular Recognition Features






MoRF SequenceStartStop




1) PTEEYAQLFAALIARTAKDIDVLIDSLP
50
77