<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 MDP33230

Description Mediator of RNA polymerase II transcription subunit 11
SequenceMSAAPAVAPVVAPAPMASRSSPSRRPVETSLDVLPAELQNTIMEQKFAQIKEQRQDARTVLREAKQRTRNQQTDQQILQLMQADERLAALLSQAADSMRALLPVPPPDAADGADAAAGSSSASSTHGAKAFEEKAQQWFSILNEVQYSLRSAVRYLREAQLSPLTPPAGPEARLRGRAGSMSRGHNLSLLEVFADISGLDGATFKLPPADPRPTSRSPSSSGAGTPTSMTFPPEGSLSLHALRERQRNWKALSSSLQQIHQNQRATSPKPSAEISLLESIKNGCSSDRILIEALTEANAKILRALVKSPDNKVCVDCKKNDPRWASWNLGCFLCIRCSGIHRSMGTHISKVKSIDLDIWTPEQMHSVQVWGNRRCNLYWEAHLKAGHVPADHKIESFIRSKYESRRWAKDGPVPSDPSVLDAGEGASVAAPAASAAVETVAVKKVIAPKVDLFDDEPAAPAPAPVAAAVKAAPVPAAPAKPAAPAGGGIFDLDWHDPAPTSASATSPTTTGAKGKNDIMSLFAAKPAAPAPAPSTAGGNGFGDFGAFAAAPAAASNQGVAGLNAGFGSLDLSSTTSSKPAPPTAGFAGAGGNPWSTPAPTSSGGQGGLFDTQDVWGTSSNATAPAASSKPKENDAFADIWGDFK
Length644
PositionHead
OrganismKalmanozyma brasiliensis (strain GHG001) (Yeast) (Pseudozyma brasiliensis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Kalmanozyma.
Aromaticity0.05
Grand average of hydropathy-0.332
Instability index58.19
Isoelectric point8.55
Molecular weight67284.79
Publications
PubMed=24356824

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

>MDP33230
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     189.00|      23|      23|     522|     544|       1
---------------------------------------------------------------------------
  472-  492 (29.50/ 8.60)	.APVPA...APAKPAAP......AGGG.IF.DL
  493-  518 (29.43/ 8.56)	DWHDPAptsASATSPTT......TGAK.GKNDI
  522-  544 (48.78/19.30)	FAAKPA...APAPAPST......AGGN.GFGDF
  547-  569 (28.66/ 8.13)	FAAAPA...A.ASNQGV......AGLNaGFGSL
  575-  595 (25.25/ 6.24)	TSSKPA...PPTAGFAG......AGGN.PWS..
  615-  643 (27.38/ 7.42)	WGTSSN...ATAPAASSkpkendAFAD.IWGDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.93|      45|      52|     239|     285|       3
---------------------------------------------------------------------------
  239-  285 (70.85/43.93)	LHALRE.RQRNWKAL.SSSLQQIHQNQRATSPK.PSAEISLLESIKngCS
  291-  338 (67.08/35.92)	IEALTEaNAKILRALvKSPDNKVCVDCKKNDPRwASWNLGCFLCIR..CS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.47|      11|      24|     384|     394|       5
---------------------------------------------------------------------------
  384-  394 (21.00/10.58)	KAGHVPADHKI
  409-  419 (21.47/10.98)	KDGPVPSDPSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.07|      13|      24|     431|     443|       6
---------------------------------------------------------------------------
  431-  443 (21.99/11.11)	PAASA.AVETVAVK
  457-  470 (19.09/ 8.53)	PAAPApAPVAAAVK
---------------------------------------------------------------------------




































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 MDP33230 with Med11 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGGGIFDLDWHDPAPTSASATSPTTTGAKGKNDI
2) APAVAPVVAPAPMASRSSPSRRPVETSLDVLPA
3) DLSSTTSSKPAPPTAGFAGAGGNPWSTPAPTSSGGQGGLFDTQDVWGTSSNATAPAASSKPKEND
4) MRALLPVPPPDAADGADAAAGSSSASSTHGAK
5) TFKLPPADPRPTSRSPSSSGAGTPTSMTFPPEGSL
485
4
570
98
203
518
36
634
129
237










Molecular Recognition Features






MoRF SequenceStartStop




1) IFDLDWH
2) KENDAFADIWGDFK
3) NDIMSLFAAK
489
631
516
495
644
525