<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 MDP04001

Description Mediator of RNA polymerase II transcription subunit 11
SequenceMASSASASTSPHSLSQGDASLDVLPAELQNTIMDGKFAQIKKQRQEARTVLREAKQRTCNQQTDQQILLLMQADERLAALLSQAADSMRALLPVNQTTLASSADATGVATTSTSTSSHGAKAFEEKAQQWFLILNEVQYSLRSAVRFLREAQLAPLTPPAAPEARSTGRAGSASRGHNLSLLEAFVDLGSLEGTTFKLPPADTVTPTSPFSNLPESSLSLQALRQRHHNWKALSTSLQQIHQSMTENNNGGFAASPELGLLESIKNGCSSDRILIDALVNTNTVSRRTFLVHHVARHSVQTTGRSQLQGPSCSGQVGRQQGLRRLQEERSTMGKLELGLLPLHPLLGHSSFYGHTHLQSIDLDIWTPEQMESVQKWGNRRCNLYWEAHLKAGHVPADHKIESFIRSKYESRRWAKDGPPPTDPSVLDGAQDVPAASASTSTGAAAPAPTAARVVQNKPAPAIDLLDDPSPAPATAPAAKTTASATKPAPAEPAPAPKPATAAGGGGGIFDLDWHEPSTSTNASSSATSPTTTSSGAKGKNDIMSLFAAKPAAPAPTTTNTGFGDFSSFATPASTTNNASSGLAGLNSSFGGLDLSASKPASNGASFASGGQNNPWSSNTTSVPNSAGGGGGGGGLFDTQDVWGSSGATASTTASKPKDDAFADIWGDFK
Length669
PositionHead
OrganismSporisorium scitamineum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Sporisorium.
Aromaticity0.05
Grand average of hydropathy-0.418
Instability index53.55
Isoelectric point6.80
Molecular weight69851.53
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:RU364147

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

GO - Biological Function
GTPase activator activity	GO:0005096	IEA:InterPro
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
positive regulation of GTPase activity	GO:0043547	IEA:GOC
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP04001
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.45|      19|      23|     529|     551|       1
---------------------------------------------------------------------------
  508-  540 (19.86/ 7.25)	IFDLDWHEPStstnasssatsPTTTSSGAkgkN
  542-  563 (26.59/ 9.34)	IMSLFAAKPA........apaPTTTNTGF...G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.40|      20|      22|     622|     643|       2
---------------------------------------------------------------------------
  596-  615 (26.77/11.30)	A....sKPASNGASFASGG...QNNPW
  616-  642 (23.11/17.71)	SsnttsVPNSAGGGGGGGGlFdTQDVW
  643-  665 (20.52/ 6.79)	GssgatASTTASKPKDDA..F..ADIW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.16|      21|      26|     447|     472|       5
---------------------------------------------------------------------------
  447-  472 (35.34/23.66)	APTAARVVQ.NKPAPAidlldDPSPAP
  475-  496 (34.81/14.49)	APAAKTTASaTKPAPA.....EPAPAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.06|      13|      27|     385|     400|      12
---------------------------------------------------------------------------
  385-  400 (20.74/16.52)	WEahlKAGHVPADHKI
  413-  425 (27.32/13.40)	WA...KDGPPPTDPSV
---------------------------------------------------------------------------




































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 MDP04001 with Med11 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ASNGASFASGGQNNPWSSNTTSVPNSAGGGGGGGGLFDTQDVWGSSGATASTTASKP
2) KYESRRWAKDGPPPTDPSVLDGAQDVPAASASTSTGAAAPAPTAARVVQNKPAPAIDLLDDPSPAPATAPAAKTTASATKPAPAEPAPAPKPATAAGGGGGIFDLDWHEPSTSTNASSSATSPTTTSSGAKGKNDIMSLFAAKPAAPAPTTTNTGFGDFSSFATP
600
407
656
571










Molecular Recognition Features






MoRF SequenceStartStop




1) IMSLF
2) KDDAFADIWGDFK
3) LFDTQDVWG
542
657
635
546
669
643