<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 MDP29802

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMEEGVRVDLDKLPIKRLQAIDEAGNEHYPPDTSSDEQRLSAIRRIDFSWVIDKDAKKPKKAAKDTAQQAWPWQGMMESLQQAQQELSIVIDLISTVEANDAVAVAGMLKPKSLPNETLVDTAVSAATKLQRLRHLGRYFKQSAKTMEQQFQKESRFYGSLIRLQQNWKVKRQRFGGSGPGSEGFMFDLVDSSQLDTSVMPRLSSLSLIPIDQDSSGTLSVQVPQKSCRFLSLNFRGDSTNGAESYGYKLKDGISNITPSATENDADNDDVNKSIKNAHSILRNIHESIFEEQVFDMVIRETFVQSQGINVTGMREDFLQLSIGQECSLCLSLAHSGDGIDSEMVGREGRTNSEDASSLVLATMNGKQDPLRKDVIGFPNPRSLEIYLLQLFHANILRKVREKSLNVGRYQSPAQVAGDDYGLLGHFCMTVAHRIFSNKVLLELESVVSGVPYLHLRSLPTWHSRTSSWSLCLKVPQPILATDRIAKPSDNHEPKYKSRSQFNTKVIVKDSQISLMGEGSPSIAGSLSGKSSDGHLINSYNCDLEDLPTMLLQQVASQVIHWLHEEALVLGMNVTRDFLCLYFDLEQGETLGLVAHVDPDDAYGCISWYLTIDHPTEDGKMSADSYEFEKRRFLGYVSLEVLYSTLMDLINLCNAGAHH
Length658
PositionHead
OrganismOryza brachyantha
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Oryzoideae> Oryzeae> Oryzinae> Oryza.
Aromaticity0.07
Grand average of hydropathy-0.357
Instability index44.31
Isoelectric point5.57
Molecular weight73429.19
Publications
PubMed=23481403

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:EnsemblPlants

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

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	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29802
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.86|      42|     249|     197|     383|       1
---------------------------------------------------------------------------
  288-  333 (59.71/124.68)	IFEEQVFDM.VIREtfVQSQGINVtGMREDFLQLSiGQECSL....CLSLA
  385-  431 (63.15/84.12)	IYLLQLFHAnILRK..VREKSLNV.GRYQSPAQVA.GDDYGLlghfCMTVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.23|      28|     249|     197|     224|       2
---------------------------------------------------------------------------
  197-  224 (48.68/31.31)	SV...MPRLSSLSLIPI..DQDS.SGTLSVQVPQ
  445-  476 (39.00/23.59)	SVvsgVPYLHLRSL.PTwhSRTS.SWSLCLKVPQ
  504-  527 (25.55/12.86)	KV...IVKDSQISLMGE..GSPSiAGSLS.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     204.15|      63|      82|      18|      81|       3
---------------------------------------------------------------------------
   18-   81 (106.37/82.08)	QAIDEAG...NEHYPPDTSSDEQrLSAIRRIDFSWVIDKDAKKPKKAAKDTAQQAWPWQGMMESLQQ
  100-  165 (97.79/70.26)	DAVAVAGmlkPKSLPNETLVDTA.VSAATKLQRLRHLGRYFKQSAKTMEQQFQKESRFYGSLIRLQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.13|      16|      98|     236|     274|       4
---------------------------------------------------------------------------
  175-  190 (30.85/ 7.17)	GGSGPGSEGFMFDLVD
  236-  251 (29.27/52.86)	GDSTNGAESYGYKLKD
---------------------------------------------------------------------------




































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 MDP29802 with Med17 domain of Kingdom Viridiplantae
Unable to open file!