<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 MDP06610

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSRLSLSLEPPRLFAGDGLDDDLFARPARLQDLNLEDGREVLTRDGTTKSLTERLMRVWAERGDFSKVTEQSIRNPTLHAEQEDPKADDEDKDTRPTVEDVRKLQETMIYNLAVARGELSTALDLLSVLSAPTDPPDVDVNSIPLPQQTLTLVPTAVPPRPSPDPATNPLAVLPLATSLDALKTSANAFFRASEELIPLDPAEQAAVTASAPGLARPRQQTRAPDPWPTIMRLHATSPRPLVPLGAMPGASLTGKGETRTARQVGVVYGCPEAREDFRRTAVARVDDLVVEEEEARSSATARGEGEAKAKPPPRGGRTLLLEFETKGGGVQRTAWVDEPGAMETESDPVERILKSRARSAFAEEMFAQMISEAKADPSLRAELILATKTEGDAVRMRGNGWMLRIAMVKESTPLETTVASDKTLPSVGPLLRLLFLQTWAFRRSPRTVKPPRSLLASISALLDHRRRVETLSQIMNRQLEKAREAGVEIVELSGDDDDVLAREVHILLRTGGGSFGGRKTLRIGKTHVYHVTHSYPLPTPKNPSPMPLPTASEPSLVLRMPGKAPIQVPSFRLLEQLLGEQVALAIEAAKAAEGARMES
Length600
PositionHead
OrganismRhodotorula sp. JG-1b
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Sporidiobolales> Sporidiobolaceae> Rhodotorula> unclassified Rhodotorula.
Aromaticity0.04
Grand average of hydropathy-0.382
Instability index47.23
Isoelectric point5.79
Molecular weight65392.77
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:RU364140

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

>MDP06610
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.06|      10|      16|     276|     285|       1
---------------------------------------------------------------------------
  276-  285 (17.57/10.75)	EDFRRTAVAR
  294-  303 (16.48/ 9.60)	EEARSSATAR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.21|      19|      22|     174|     195|       2
---------------------------------------------------------------------------
  174-  192 (31.01/23.24)	LPL.ATSLDALKTSANAFFR
  198-  217 (27.21/11.19)	IPLdPAEQAAVTASAPGLAR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     261.45|      78|     209|     304|     383|       3
---------------------------------------------------------------------------
   11-   82 (95.22/40.54)	.......PPRlfAGD...........GLDDDLFARPARLQDLNL..EDGREVLTRDGTTKSLTERLMRVWAERGdFSKVTEQSIRNPTLHAE
   84-  136 (36.79/ 9.77)	EDPKADDEDK..DTRptvedvrklqeTMIYNLAVARGELS.TA.LDLLSVLSAPTDP...................................
  306-  383 (129.44/59.68)	GEAKAKPPPR..GGR...........TLLLEFETKGGGVQRTAWVDEPGAMETESDPVERILKSRARSAFAEEM.FAQMISEAKADPSLRAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.38|      27|     129|     409|     443|       4
---------------------------------------------------------------------------
  409-  435 (46.71/38.88)	VKESTPLET.........TVASDKTL....PSVGPL....LRLL
  532-  575 (32.67/10.82)	VTHSYPLPTpknpspmplPTASEPSLvlrmPGKAPIqvpsFRLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     112.64|      28|     206|     238|     265|       5
---------------------------------------------------------------------------
  238-  265 (47.08/23.03)	SPRPL..VP...LGAMPGASLTGKGETRTARQV
  445-  475 (34.30/14.95)	SPRTV..KPprsLLASISALLDHRRRVETLSQI
  476-  505 (31.26/13.02)	MNRQLekAR...EAGVEIVELSGDDDDVLAREV
---------------------------------------------------------------------------




































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 MDP06610 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LLSVLSAPTDPPDVDVNSIPLPQQTLTLVPTAVPPRPSPDPATNPLAVLPLAT
2) LVVEEEEARSSATARGEGEAKAKPPPRGGRTLLLEF
3) PAEQAAVTASAPGLARPRQQTRAPDPWPTIMRLHATSPRPLVPLGAMPGASLTGKGETRTARQVGVV
4) TEQSIRNPTLHAEQEDPKADDEDKDTRPTVEDVR
126
289
202
70
178
324
268
103










Molecular Recognition Features






MoRF SequenceStartStop




1) LFARPARLQ
24
32