<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 MDP20888

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMAGSAHKNLGLITRACWVKGVPPSSWQQLMAQTASSSLPPVEVEQQIYALLQLLADSTSMPSPLVLDYVQSAVTPSTSVAQFAPSLVRVGFFAARLTRCSVNSIALDKAFDVINKTLLTAASDTPTYAVLNADELVDALDWALGRISRLGTADSTPGELTPQSPTVSYISTFLQRSLIPFNLAGIDPQRLGATLASLDACVSTLQQMHVDPTAARISTDLQRTLLEIKIALSPKGEVTSKLPVIPRARIASPPPTNSLDLVPTTQADSDIAFLIWDLSYRGHISVGIANTPVATARIVALLKDRLAQADARGSTHEQTLSRAFLELFLAATVDLRESVGKFTRQASFAYSRLPELLRNIAANRKVDVPGSPDLVRLAFDSSVRLFSVSTRTESEDAMALDGATTRPVLDALVAGLCQHELISTDLAAGLSPSLHPSQLVPSSFPSTTAQLMSGSIDSVREVFASLETHGSASHRAISNSLVEAVSSLASSVDIPGLSNICSVLVEQPSILSIVFLHVQPFLVLSPIRSLLDTFGSSLENLGYDDPSTGYGVVLLFLQVVVSRHGLQTDLSHHLGSRRGFLVQWLLSISATYSLTSLDDDARATVNGWIQALFGDGISDELMHQTNPRTLLKVLPTVAKQSLAACHAGVIDAEQLRDGLSFLLQGLLSFTLPGVLKWLVGEIERTPTGDYQIMMLDILSVLIFSESLPKTIVELVASDLATLVHRLPSTTSTTIDVKRVQSLIQPYRKAVVGAKAYATPTPSSEIAAPFDLSFDRTIYSSSSTIMLYTLLNSSPPSSSLIDEMGMTRLAKTILLVPSHSTDLVDAYAARFTSFILQDLPSMSIDLPNATKLGSWIGEALKAYELIENELVHEGQSSGGVFVLLVASVVKDVKRRRALKLGDDKAVEIWAQALTAKCRRFGEGLEKM
Length925
PositionTail
OrganismMicrobotryum silenes-dioicae
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Microbotryales> Microbotryaceae> Microbotryum.
Aromaticity0.06
Grand average of hydropathy0.197
Instability index47.68
Isoelectric point5.64
Molecular weight99443.86
Publications









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

>MDP20888
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.00|      47|      53|     393|     440|       1
---------------------------------------------------------------------------
  393-  440 (75.50/51.42)	SEDAMALDGA..TTRPVLDAL.VAGLCQHELISTDLAAGLSpSLHPSQLVP
  445-  494 (67.50/40.62)	STTAQLMSGSidSVREVFASLeTHGSASHRAISNSLVEAVS.SLASSVDIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     170.09|      57|      90|     682|     742|       2
---------------------------------------------------------------------------
  682-  742 (82.89/56.71)	ERTPTGDYQIMMldiLSVLIFSeSLPKT..IVELVASDLATLVHRLPSTTSTTID..VKRVQSLI
  773-  833 (87.20/48.91)	DRTIYSSSSTIM...LYTLLNS.SPPSSslIDEMGMTRLAKTILLVPSHSTDLVDayAARFTSFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.60|      30|      52|     272|     303|       4
---------------------------------------------------------------------------
  272-  303 (46.43/39.79)	FLIWDLSYRGhiSVG..IANTPVATARIVALLKD
  327-  358 (45.17/31.00)	FLAATVDLRE..SVGkfTRQASFAYSRLPELLRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.19|      39|      80|     526|     586|       5
---------------------------------------------------------------------------
  526-  570 (52.59/38.28)	IRSLLDTfGSSLENLGYDDPSTgygvvLLFL.............QVVVSRHGLQTDLS
  608-  659 (56.60/46.34)	IQALFGD.GISDELMHQTNPRT.....LLKVlptvakqslaachAGVIDAEQLRDGLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.30|      23|     124|      84|     126|       6
---------------------------------------------------------------------------
   84-  109 (33.04/16.01)	PSLVRVgffAARLTRCSVN.SIALDKA
  211-  234 (31.25/ 6.73)	PTAARI...STDLQRTLLEiKIALSPK
---------------------------------------------------------------------------




































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 MDP20888 with Med5 domain of Kingdom Fungi
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