<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 MDP05479

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMAGMDEGVRLDLDKLPIKRLDAIDEAGNEHYPPDTSSEEQRLAAIRRVDFSWVIERDAKKAKKAAEDTAQQSWQWQGLMESLQQAQQELTVVLDLISTVEANDAVAVTTTSKPKSLPNEVLDDMAVSAATKLQRLRHLGRYFKQSAKTMEQQFQKEARFYGSLIRLQQNWKVKRHRFGATGPGSDSFMFDVVDTSQLDTAAMPRMSSMSLVPIDQDSSGTLSVQVPQKSCRFLSLQLRGDNASSAESYACKMKGISSTTSAAENDALENDDVNKSVKHAHSILRNIHKSIFEEQVFDMVIRETFVPSQGINVTGMREDFLQLAIGQENLLCLSLEHSGLDTDSEMEGLEEPTDSEDASNLVLATINGKQEPSKMDASGLNPKSLEIYLLHMFHENILRKVREKYRNIVRYPSPAQAAGDDCNLLGHFCMTVAHRIFSNKVHLELESVVSRVPYLHLQSLPTWHSRTSSWSLCLRVPQPILAADRVTKPLDNDEPKYKSRSQFNTKVILKDGQISLMGEGSPSIAGSLTRKPSDGYLINSYNCDLEDLPTMLLQQVASQVINWLHEEALVLGMNVTRDFLCLYFDLDQGDTLGLVAHVDPDDAYGCISWYLTIDHSAKDGKMSTDNPEFEKRRFLGYLSLEVLYSTLMDLINLCSTGVHH
Length659
PositionHead
OrganismBrachypodium distachyon (Purple false brome) (Trachynia distachya)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Brachypodieae> Brachypodium.
Aromaticity0.07
Grand average of hydropathy-0.379
Instability index49.22
Isoelectric point5.32
Molecular weight73828.70
Publications
PubMed=20148030

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

>MDP05479
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     287.16|      85|     247|     293|     382|       1
---------------------------------------------------------------------------
  169-  199 (24.20/ 8.49)	..................NWKVKRHRFGATGPG.SDSFMFDVVDTSQLDT...........................................
  293-  382 (130.38/105.73)	EQVFDMVIREtfVPSQGINVTGMREDFLQLAIG.QENLLCLSLEHSGLDTDSEMeGLEEPTDSEDASNLV..LATINGKQEPSKMDASglNPK
  545-  627 (132.58/90.06)	EDLPTMLLQQ..VASQVINW..LHEEALVLGMNvTRDFLCLYFD...LDQGDTL.GLVAHVDPDDAYGCIswYLTIDHSAKDGKMSTD..NPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.15|      24|     247|     203|     227|       3
---------------------------------------------------------------------------
  203-  227 (39.57/28.78)	PRMSSMSLvPI..DQDSSGTLSVQVPQ
  452-  477 (41.58/25.72)	PYLHLQSL.PTwhSRTSSWSLCLRVPQ
---------------------------------------------------------------------------




































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 MDP05479 with Med17 domain of Kingdom Viridiplantae
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