<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 MDP04508

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQSLPHQVVPSPARLGLSNPNSPALQSPSATKLSSQQATQSQQSHQQVTLPAAKTTSSTLLSLLPPQQRAQTLLVQMASLAAKLFEVSPNRSVWVSAFRGSLPTFLPSQTNSTSTPPLDSPSSTTKEIVALFTSLQTQLFEAVAELQEILDLQDAKQKLNQEIEAKDSAVLSFAKKLKEAERVLDMLVDDYADYRRPKRSKSEDDSDDTSSTTTTTTVASQLKLSDVLSYAHKISYTTFAPPEFGAGGPLRGALPPAPQEDQMRASQLYAFVDLDIGLPKTVEDEKRIEPLIETQNPDPMAAIKGLMPPNITVPAGWKPGMPVELPMDIPLPPAGWKPGDPINLPPLESLPMVARAGEQPPPQSVAPVFPRAAETIQVPHIRIDILDQDDDSDEYSSDEGSSDDEDEG
Length409
PositionMiddle
OrganismSpinacia oleracea (Spinach)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> Caryophyllales> Chenopodiaceae> Chenopodioideae> Anserineae> Spinacia.
Aromaticity0.05
Grand average of hydropathy-0.426
Instability index72.22
Isoelectric point4.58
Molecular weight44272.27
Publications
PubMed=24352233

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. 
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro

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











Repeat regions





Repeats

>MDP04508
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      83.47|      16|      16|     312|     327|       1
---------------------------------------------------------------------------
  312-  327 (33.36/18.39)	ITV.PAGWKPGMPVELP
  330-  346 (30.30/16.02)	IPLpPAGWKPGDPINLP
  364-  380 (19.81/ 7.91)	QSVaPVFPRAAETIQVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     165.10|      37|      54|      51|      87|       2
---------------------------------------------------------------------------
    5-   36 (53.46/22.60)	LPH...QVVPSPARLGLSNPNSPA....LQSPS.ATKLSS
   51-   87 (57.82/24.98)	LPA...AKTTSSTLLSLLPPQQRAQTLLVQMASLAAKLFE
  103-  142 (53.82/22.80)	LPTflpSQTNSTSTPPLDSPSSTTKEIVALFTSLQTQLFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.10|      11|      51|     300|     310|       3
---------------------------------------------------------------------------
  300-  310 (22.57/12.35)	PMAAIKGLMPP
  352-  362 (22.53/12.31)	PMVARAGEQPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.98|      12|      54|     167|     178|       4
---------------------------------------------------------------------------
  175-  192 (12.82/ 6.27)	AKKLkeaervLDMLVDDY
  220-  231 (19.16/12.87)	ASQL......KLSDVLSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.05|      13|      21|     257|     269|       5
---------------------------------------------------------------------------
  257-  269 (23.61/12.57)	PAPQEDQMRASQL
  280-  292 (22.44/11.63)	PKTVEDEKRIEPL
---------------------------------------------------------------------------




































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 MDP04508 with Med4 domain of Kingdom Viridiplantae
Unable to open file!