<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 MDP31707

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTGPGSPSVQNPTPTRHGHPTSSSSSQSQHQQIQQQPNLLPSSTVAAASSASASAAVSSSALLSLLPPLPRAQALLQQMAVLTSKLFDVSPNRAIWLSAFRGSLPSFLSSHSLPPPPPLENPSPSSTKEILSQFNSLQTQLFEAVTELQEILDLQDAKQKVAREIKSKDSSLLAFANKLKDAERVLDMLVDDYSDYRKPKRSKIEEDDEDNDNESSSSSTTVSSQLKLKDILAYAHKISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYTFADLDIGLPKTVENMEKKVEALIEPPPPPEAMDISAIHNLLPPNIAVPSGWKPGMPVELPRDLPLPPPGWKPGDPVVLPPLESIAAPRAEDHQHMRPSQGLHRPPDVIQVRAVQLDILEDDDSSDYSSDDASSDDED
Length426
PositionMiddle
OrganismArabidopsis thaliana (Mouse-ear cress)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Camelineae> Arabidopsis.
Aromaticity0.04
Grand average of hydropathy-0.488
Instability index70.55
Isoelectric point4.88
Molecular weight46155.21
Publications
PubMed=11130714
PubMed=27862469
PubMed=17560376
PubMed=22021418
PubMed=19376835

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. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity). 
ECO:0000250
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IDA:UniProtKB
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions
[Q9LZ00<-->Q8RWA2: MED9]	NbExp=5	EBI-1386214,EBI-1386224

Repeat regions

Repeats

>MDP31707
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.16|      16|      16|     334|     349|       1
---------------------------------------------------------------------------
  334-  349 (33.36/15.75)	IAV.PSG.....WKPGMPVELP
  352-  368 (29.10/12.83)	LPLpPPG.....WKPGDPVVLP
  373-  393 (21.69/ 7.77)	IAA.PRAedhqhMRPSQGLHRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     139.82|      36|      44|      45|      84|       2
---------------------------------------------------------------------------
    4-   42 (42.56/12.25)	HQIVQSPARLgltgPGS.pSVQNPTPTRHGHPTSS.SSSQS....
   45-   80 (55.41/18.82)	QQIQQQPNLL....PSS..TVAAASSASASAAVSS.SALLS..LL
   87-  127 (41.84/17.60)	QALLQQMAVL....TSKlfDVSPNRAIWLSAFRGSlPSFLSshSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.48|      17|     185|     128|     145|       3
---------------------------------------------------------------------------
  128-  145 (30.34/16.20)	PPPPPlENPSPSSTKEIL
  314-  330 (34.14/14.82)	PPPPP.EAMDISAIHNLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.11|       9|      32|     254|     263|       4
---------------------------------------------------------------------------
  254-  263 (15.33/12.64)	YtTFAPPEFG
  288-  296 (17.78/ 9.40)	Y.TFADLDIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.66|      22|     201|     200|     224|       5
---------------------------------------------------------------------------
  200-  224 (37.56/31.30)	LDMLV.DDYSDYRKPKRSKieeDDED
  404-  426 (36.10/21.99)	LDILEdDDSSDYSSDDASS...DDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.64|      17|      58|     175|     193|       6
---------------------------------------------------------------------------
  175-  193 (22.98/17.34)	VAREIKSKDssLLAFANKL
  236-  252 (28.66/15.56)	VSSQLKLKD..ILAYAHKI
---------------------------------------------------------------------------


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 MDP31707 with Med4 domain of Kingdom Viridiplantae



     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PSGWKPGMPVELPRDLPLPPPGWKPGDPVVLPPLESIAAPRAEDHQHMRPSQGLHRPPDVIQVRAVQLDILEDDDSSDYSSDDASSDDED
2) VQSPARLGLTGPGSPSVQNPTPTRHGHPTSSSSSQSQHQQIQQQPNLLPSSTV
337
7
426
59










Molecular Recognition Features






MoRF SequenceStartStop




1) LHRPPDVIQVRAVQLDILEDDDSSDYS
390
416