<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 MDP16341

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNIPHQIVQSPARLGLPNPNSPSLQNSNQPKFSSQSQQTQQSHLPVNQLTTPAISSTLLPLLPPLPRAQSLLLQMASLVSKLFEVSPNRSHWISAFRGSLPSFLPSQNQPLAPNLPDSSQSSAKEILAQFSTLQNQLFEAVAELQEILDLQDAKQKLSRDIRSKDSALLAFANKLKEAEHVLDNLVDDYSDYRRPKRSKSVDDPEGSSTTTVATQLKLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQIYNFADLDVGLPKTDEQKEKIIEPLIEPPAALPSESNPLSNMPGMQGLLPPNFVVPSGWKPGMPVELPSDLPILPPPGWKPGDPITLPPLDSLPIPPRADEQQLRPIPPPGLAKAPEPIQVRHVQLDIEDDSSDYSSDVGSSDSED
Length410
PositionMiddle
OrganismHandroanthus impetiginosus
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Lamiales> Bignoniaceae> Crescentiina> Tabebuia alliance> Handroanthus.
Aromaticity0.05
Grand average of hydropathy-0.475
Instability index76.29
Isoelectric point4.87
Molecular weight44733.96
Publications
PubMed=29253216

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
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

>MDP16341
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     111.82|      30|      32|     320|     349|       1
---------------------------------------------------------------------------
  237-  260 (30.52/ 6.71)	....PPEFGAGQ.A...PLrGALP..PAPQEEQM
  261-  314 (30.18/ 6.57)	PLIEPPAALPSESN...PL.SNMPGMQGLLP...
  336-  368 (51.12/15.72)	PILPPPGWKPGDPItlpPL.DSLPIPPRADEQQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.92|      21|      32|      67|      97|       2
---------------------------------------------------------------------------
   67-   90 (29.12/13.38)	LPraqSLL.LQMASLVSKLFEVSPN
  102-  123 (31.80/18.18)	LP...SFLpSQNQPLAPNLPDSSQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.30|      40|      40|     139|     178|       4
---------------------------------------------------------------------------
  125-  168 (53.03/36.37)	AkeILAQFSTLQnqLFEAVAEL..Q..EI.LD.LQDAKQKLSRDIRSK......DS
  169-  209 (39.77/25.30)	A..LLAFANKLK..........eaE..HV.LDnLVDDYSDYRRPKRSKsvddpeGS
  376-  408 (35.49/21.72)	..............LAKAPEPI..QvrHVqLD.IEDDSSDYSSDVGSS......DS
---------------------------------------------------------------------------




































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 MDP16341 with Med4 domain of Kingdom Viridiplantae
Unable to open file!