<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 MDP06416

Description Mediator of RNA polymerase II transcription subunit 15 (Fragment)
SequenceLSLIMEDDWRSQRQREKVIQHLDNVIRSCTVPLNIPGDARQVENAIFLKASNQEEYMQFVSKIIYHASSGAAAMSQPQRHQAPVNQVPYGNMQPGTQFRRADMRPMQQPMQQQQQQQQQQQQQQVPGQIYSGMRAPPNAEMQPRLLRPMHQPSVTMHHMHQQQAQMGQMGMTQSAGIAAAAQQQPQNVVMLLTSGNPPRQAASAPSAVQLRQPNDIQQFLQQLPPAIRQQILQLPPEEQAEQLKKFFESRRWQQQQQLHQQQQIQQQQQQQQQQQQQQQQIQQQIQQHQQQQQQLQVQQQIQHQMHHVAQNQMHTQAVIQQQQQQQQQQQQQQQQQQQQQHQQQFASVRQQQQMQMLQPMMQQPGAVRFADQSTTMLYSRPPATPVMIPQTPAPVQQPPSQPAPVTPMSGQAASPNVNIGTPYPSSSPAGAHMMGPSPAYAAETSPVCHPAATPGPKTSQMSPAANSLPPESIGAEHSPYKEKVNELLVYLEPLKRLIEQTKESTSDSSQTQKFQRMVDILEGRNDTSMDVLLKCEETLKMICQKSDIIKVKDRNINQPLLDAISAITKPERQKINLYEYFNFPLYQCSLKNTCFVNIANCPDCLKGSCENETAQASNVEDSDQISIPLNIQREIGSLESKFRVTIDPSQRPLRSSCKFISVLCELLDITLPSVPPIYIRIPTNYPQSPPKYDLEWSQYCDSPYLNSIRKSLESFSSDTGAPNTISALLTNWETCVRDASFI
Length742
PositionTail
OrganismTrichinella sp. T8
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.795
Instability index78.03
Isoelectric point7.67
Molecular weight84297.24
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

>MDP06416
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     473.15|      65|      65|     216|     280|       1
---------------------------------------------------------------------------
   16-   72 (53.18/ 8.98)	..........EKVIQHLDNVIRSCTVPLNIPGDARQVENaiFLKAS...NQEEY.....MQFVS..KIIYHASSGAA
   73-  119 (72.70/14.81)	AMSQP..QRHQAPVNQVPYG......NMQPGTQ.............fRRADMRP.....M..QQ..PMQQQQQQQQQ
  120-  186 (86.65/18.99)	QQQQQvpGQIYSGMRAPPNAEMQPRL.LRPMHQPSVTMH..HMH.....QQQAQmgqmgMTQSA..GIAAAAQQQPQ
  209-  273 (116.62/27.95)	QLRQP..NDIQQFLQQLPPAIRQQILQLPPEEQAEQLKK..FFESR.RWQQQQQ.....LHQQQ..QIQQQQQQQQQ
  274-  328 (96.83/22.03)	QQQQQ..QQIQQQIQQHQQ..QQQQLQVQQQIQ.HQMHH...V.......AQNQ.....MHTQA..VIQQQQQQQQQ
  329-  357 (47.16/ 7.17)	QQQQQ..QQ........................................QQQQQ......HQQQfaSVRQQQQMQML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.55|      21|      22|     379|     400|       2
---------------------------------------------------------------------------
  379-  398 (37.53/16.49)	..SRP.PATPVMIPQTPA......P...VQQP
  399-  422 (27.99/10.49)	P.SQPaPVTP.MSGQAAS......PnvnIGTP
  424-  449 (24.03/11.85)	PsSSP.AGAHMMGP.SPAyaaetsP...VCH.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.61|      12|      16|     546|     557|       3
---------------------------------------------------------------------------
  546-  557 (20.10/14.20)	SDIIKVKDRNIN
  565-  576 (20.51/14.64)	SAITKPERQKIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.49|      10|      16|     632|     642|       4
---------------------------------------------------------------------------
  632-  642 (13.60/12.59)	QREIGSlESKF
  650-  659 (19.89/12.97)	QRPLRS.SCKF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.61|      19|      22|     450|     468|       5
---------------------------------------------------------------------------
  450-  468 (33.22/19.57)	PAATPGPKTSQMSPAANSL
  469-  487 (33.39/19.72)	PPESIGAEHSPYKEKVNEL
---------------------------------------------------------------------------




































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 MDP06416 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) QQQQQQQQQQQQHQQQFASVRQQQQMQMLQPMMQQPGAVRFADQSTTMLYSRPPATPVMIPQTPAPVQQPPSQPAPVTPMSGQAASPNVNIGTPYPSSSPAGAHMMGPSPAYAAETSPVCHPAATPGPKTSQMSPAANSLPPESIGAEHSP
2) SGAAAMSQPQRHQAPVNQVPYGNMQPGTQFRRADMRPMQQPMQQQQQQQQQQQQQQVPGQIYSGMRAPPNAEMQPRLLRPMHQPSVTMHHMHQQQAQMGQMGMTQSAGIAAAAQQQPQNVVMLLTSGNPPRQAASAPSAVQLRQPNDIQQFLQQ
329
69
479
222










Molecular Recognition Features






MoRF SequenceStartStop




NANANA