<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 MDP27970

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDEFIDARFERVEKALASLVESVSKYHPYAKQALDLQEADKELSRGLELVQQHQNNHLRLQELRTTSSALDAQIRETLSTLASTRRDITTTHITVHGDEDHYPIKYEELLNYARRISKTTLPPAGVTNGVTFEPAASEDPPAGAVINGVQSAVTSAAPTPSGAPTPGAPTPGAQTPAAPTPTAQQLPDPSSGPNGATSQPPEQPGAAPGDNPSGAPLGITTALPSGLRDHLDANHGTIFLPWPNEYQIGGGALAACQDLSERGIDPRGYDPVAVAAEAKRREEEDKAAKAELERRKAEETRRKREEWEANQRRRAAEAAQKPEPSATSPAPAAGKNAQFQFTSMDMDDDDDD
Length352
PositionMiddle
OrganismVerticillium dahliae (strain VdLs.17 / ATCC MYA-4575 / FGSC 10137) (Verticillium wilt)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Glomerellales> Plectosphaerellaceae> Verticillium.
Aromaticity0.04
Grand average of hydropathy-0.776
Instability index57.95
Isoelectric point4.92
Molecular weight37740.97
Publications
PubMed=21829347

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:RU364141
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

>MDP27970
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     127.54|      20|      20|     154|     173|       1
---------------------------------------------------------------------------
  122-  139 (25.08/ 8.20)	PPAG.VTNGV....T...feP.AASED
  140-  163 (34.10/13.73)	PPAGAVINGVqsavTSAA..P.TPSGA
  164-  184 (35.75/14.74)	PTPGAPTPGA...qTPAA..P.TPTAQ
  187-  207 (32.61/12.82)	PDPSSGPNGA....TSQP..PeQPGAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.45|      12|      16|     294|     305|       2
---------------------------------------------------------------------------
  294-  305 (20.70/12.43)	RRKAEETRRKRE
  312-  323 (20.75/12.48)	RRRAAEAAQKPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      30.83|       9|      16|     215|     224|       3
---------------------------------------------------------------------------
  215-  224 (12.68/12.67)	APLGiTTALP
  233-  241 (18.15/12.08)	ANHG.TIFLP
---------------------------------------------------------------------------




































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 MDP27970 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARRISKTTLPPAGVTNGVTFEPAASEDPPAGAVINGVQSAVTSAAPTPSGAPTPGAPTPGAQTPAAPTPTAQQLPDPSSGPNGATSQPPEQPGAAPGDNPSGAPLGITTALPSGLRDHLDANHGTIFLPWPNEYQ
2) GGGALAACQDLSERGIDPRGYDPVAVAAEAKRREEEDKAAKAELERRKAEETRRKREEWEANQRRRAAEAAQKPEPSATSPAPAAGKNAQFQFTSMDMDDDDDD
113
249
247
352










Molecular Recognition Features






MoRF SequenceStartStop




1) QFQFTSMDMDD
2) RRKREEWEANQRRRAAEAAQKPEPSATS
338
301
348
328