<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 MDP24624

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMDGKMEISLDKLPIKRLDAIEENGAERFPTDVGYDDKRVSLIRRIDFAWAVEKDTKKQKKASKEEATPWPWQSLVENLRLAHQELSVIIDLISTVEANDAVTVASMTRPKPLPNEVLSDLGVSAATKLQCFRHLSKYFKQSAKALEQQIAREARFYGALIRLQQNWKVKRQRVAASAPGNEGFSIDLFSNSLHDPVAVFRPSSLSTVRVDHDSAGMLAVHLPPNSCRALHFGFLGGHLGNIPKEPSKTKTYGPDELPSKEIKKPLSDNECVKETHSVLREGHQAIFDEQVFDLVNREAFNSSSGVNVTGIRENYLQLNIGQGASVFMSLVPSGQDEKTADGMGMQNLESAILPMDTFDGVKLSDGKHDNDKKKSGFPNRISSEIYLKQLFHEHVFVRAKDKHISAGRTQPSSQPAKDGFGLLGHFCMSLAHRIFSSKVLMELENLVSRVPYLHLLSHPTWHSRTSSWTLLMKVPESSFHPGCQTRTSDIHNVKNIIKTHFRTKVVINDDCINVEGDGAPNVVGLFKGSSEDVCSMNRYDCDLADIPVILLQQVASQVIRWLHEEALKVGIKANRDFLCLSFEMDQGEMLSLVAHVNPDDPQGCISWWLVMDDGFSEDLKFHTDAPDGGSEYRKFLGHLSLEVLYSTLMDLVSLCNGGGRH
Length660
PositionHead
OrganismVitis vinifera (Grape)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> Vitales> Vitaceae> Viteae> Vitis.
Aromaticity0.07
Grand average of hydropathy-0.346
Instability index38.63
Isoelectric point6.30
Molecular weight73650.93
Publications
PubMed=17721507

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
production of miRNAs involved in gene silencing by miRNA	GO:0035196	IEA:EnsemblPlants
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP24624
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.57|      23|     186|     211|     238|       1
---------------------------------------------------------------------------
  211-  238 (37.72/37.79)	HDSAGmlavHLPPNSCRALH.FGFLgGHL
  402-  425 (40.86/25.19)	HISAG....RTQPSSQPAKDgFGLL.GHF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.90|      35|      57|     561|     596|       2
---------------------------------------------------------------------------
  561-  596 (56.60/39.71)	LHEEALKVGiKANRDFL.CLSFEMDQGEMLSLVAHVN
  620-  655 (58.30/36.52)	FHTDAPDGG.SEYRKFLgHLSLEVLYSTLMDLVSLCN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.22|      20|      27|     429|     450|       3
---------------------------------------------------------------------------
  429-  450 (27.80/22.58)	LAHRIFSSKVlmELENLVSRVP
  455-  474 (38.42/24.23)	LSHPTWHSRT..SSWTLLMKVP
---------------------------------------------------------------------------




































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 MDP24624 with Med17 domain of Kingdom Viridiplantae
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