<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 MDP29169

Description Mediator of RNA polymerase II transcription subunit 15
SequenceRRKMRWGTEALRPSAPAMEVPGPDSDWKSPQFRQKVVAQIEEAMRKAGTAHNKSSTDMENHVFIKAKSRDEYLSLVARLIIHFRDIRKYSGTLADPMNALTNLTGVGGGPGAMGVGPRPTGAPVGGMGAMGPMQIGQHAMAGVAGNPQPLGPAPPSPSPPSAVGGPGQMPVQQMVQAAAEAQNQQQQTQMHQTRVMQLQFQQQAQAQSIQHMVQQQVQAQAQVGQMPPHMVLQSLAGQMVSSQHVPLSCFLCCALKQARAVLQQQAAQQAAAQAQLNAAAAAAATAVPGQLGYHLDPKQTKPPKPGRENRLGKSEKTELKGKQSSFGSAGETRPRPAFCPLSSVLKLVRPGMQLPARMPRASIPPPNAAAASAVAGGPPLTQQAQQHSMMSSPSPVQAQSMLPPPQPSPQPPPSQPNSASSGPTPSPGGFQPSPSPQPSQSPSNARPVSNYSVPSPGPLNTPGNPSSVMSPAGPTSLEDQQYMEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLNILTDPTTRCPLKTLQKCEIALEKLKNDMAVPTPPPVATKQQYLCQPLLDAVMTNIRSPVFNHSLYRTFAPAMSAIHGPPISCPSVCGRKRKQEEEERQSVPNILQGEVARLDLKFLVNLDPSQCSTNGTVHLICKLDDKNLPSVPPLQLRIPADYPEQSPCWDDHGDQYGSNSFLQKVHRTMTSKLLQLPDKHSLTELLNTWAQSVQQACRWAA
Length735
PositionTail
OrganismTetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Tetraodon.
Aromaticity0.04
Grand average of hydropathy-0.543
Instability index71.09
Isoelectric point9.62
Molecular weight79176.86
Publications
PubMed=15496914

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

>MDP29169
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     111.53|      22|      28|     406|     431|       1
---------------------------------------------------------------------------
  155-  170 (31.48/ 7.50)	PSPSP....P.SAVGGPGQMP.
  407-  428 (45.49/16.41)	PSPQPPPSQPNSASSGPTPSPG
  438-  457 (34.56/ 7.02)	PSQSPSNARPVSNYS..VPSPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.79|      25|      28|     172|     198|       2
---------------------------------------------------------------------------
  172-  198 (41.94/20.23)	QQMVQaaAEAQNQQQQTQMHQTRVMQL
  210-  234 (46.85/18.42)	QHMVQ..QQVQAQAQVGQMPPHMVLQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     118.07|      26|      28|      96|     121|       3
---------------------------------------------------------------------------
   96-  114 (29.48/ 9.92)	........PMNAL..........TNLTGVGGGPGAMG
  115-  131 (28.15/ 9.13)	VGPRPTGaPV.................G...GMGAMG
  135-  151 (29.21/ 9.76)	IGQHA....................MAGVAGNPQPLG
  295-  330 (31.22/10.95)	LDPKQTK.PPKPGrenrlgksekTELKGKQSSFGSAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.50|      23|      28|     513|     539|       4
---------------------------------------------------------------------------
  513-  539 (31.99/26.93)	LSKMKsllNILTDPTTRcPLKTLQK..CE
  542-  566 (38.51/19.38)	LEKLK...NDMAVPTPP.PVATKQQylCQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.59|      16|      37|     352|     367|       5
---------------------------------------------------------------------------
  352-  367 (31.54/13.81)	MQLPARMPRAS.IPPPN
  390-  406 (25.05/ 9.29)	MSSPSPVQAQSmLPPPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.89|      11|      28|     254|     264|       6
---------------------------------------------------------------------------
  254-  264 (17.75/ 9.90)	ALKQARAVLQQ
  280-  290 (18.14/10.28)	AAAAATAVPGQ
---------------------------------------------------------------------------




































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 MDP29169 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MNALTNLTGVGGGPGAMGVGPRPTGAPVGGMGAMGPMQIGQHAMAGVAGNPQPLGPAPPSPSPPSAVGGPGQMPVQQMVQAAAEAQNQQQQTQMHQTRVMQLQFQ
2) RKMRWGTEALRPSAPAMEVPGPDSDWKSPQFRQK
3) VPGQLGYHLDPKQTKPPKPGRENRLGKSEKTELKGKQSSFGSAGETRPRPAFCPLSSVLK
4) VRPGMQLPARMPRASIPPPNAAAASAVAGGPPLTQQAQQHSMMSSPSPVQAQSMLPPPQPSPQPPPSQPNSASSGPTPSPGGFQPSPSPQPSQSPSNARPVSNYSVPSPGPLNTPGNPSSVMSPAGPTSLEDQQYMEKLKQLS
97
2
287
348
201
35
346
490










Molecular Recognition Features






MoRF SequenceStartStop




1) RRKMRWGT
1
8