<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 MDP21409

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMVSQDVGRAIDTLLSQCLARRLPQSKWLQLLHQLLRRLDESLAANGASSSTSNAPTAAHIDAAGLAVKTLLSRTLDQPLIDPLLIEYLQGALYGSANRSGIEPDQGPITDVITATLYFLTLVYQQDFHDQNALLTLIQSLESVSSVLGQGLVATFSAPTAYIVTNDAFLELLTQVFQRAAQPRDSTASQPDKDTSVLCRASMAFVVANLRLVTLASHPSIASPQNLLCPRVGVTLLMNMAQGLLGHVYQTMLTLSQRATAATETASTQDSAHDVTAQIDSILETMNPAWKSEISLLRNLNGQIDLIVKLCRSLSSKDTLDASSGAAHKRAAEAALLAQKRAVWDHFIDVDAIASPETGPATASLSGVTPSTSKAPASAPTIEPEVALLLHQLVDQQAEWAEKLNSVKSLLLSRRLHSNPSVTLEKSLTAFYFEMLHAAVEACASVIETPPAFKGAETYPALWRNVVCGLLPEVILQIEQWLDATPDLPVRGQRQEAPHVRVESALKATLLIMADRLTICETAGQGPSAAADTMNEMMPDVVGMDTPPNQPIKAWMLRAFIEHSLARPEAITDEFPAGHKLASEVQSLPQSLQMDAQLEGLTLAALFESRFSSGEDPVELLHRVASDPGTLFTFSQQLTLQLQSWLDVHDFDSISRWCKALPEDLASLDTIMVYIDPVQMVHPLASLLDRQDLDQASDEPSTLGSILLFLQLLCHRYNVGPDRIVSANNGAPCFFAEYLSTASACHTLSDLSEDDRALVGRWIHALFGNEGISDDLIQASSPKTLLKLSPLLFSQSITACIYGVIDLETLRGGLSYFLQDLLSYALPGALNWLLREVLRVPLIPILDLLSSAGLQGNLDVPSNDGTLGNGLPRKANSRTVYLDVLALLLDSDSCPSVVRQLVARSFDRFVTSSRLHVTLEGCDSLTLSSVRARMESAGCTVSIISAEYPWLRSLLTQSQIPMSDSPQEQVLLRSLSQQLEVSSARDVFRQMTSHLTSALTSTGDSRSVEKALAARCALGPCAPETPLLKLVSQLDLAEAKSEASAAPMTRFLVLIFGLLHASDVLFDSAKASQAAETASAGLFDDEEDTHKTPSHHRYRIRTDQVVSILGIRLVRLATANPSLYQAYVNAVKSQQDCIAPGVRNRLWRFLGLPASADASTNMDVDGSSN
Length1168
PositionTail
OrganismTesticularia cyperi
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Anthracoideaceae> Testicularia.
Aromaticity0.05
Grand average of hydropathy0.050
Instability index47.60
Isoelectric point5.06
Molecular weight126455.63
Publications
PubMed=29771364

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

>MDP21409
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     444.79|     149|     163|     171|     332|       1
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  171-  319 (192.41/139.56)	...............LLTQvfQRAAQPR....DSTASqPDKDTSVlcrASMAFVVANLRLVTlASHPSIASPQNLLCPRVgVTLLMNMAQGlLGHVYQTML....................T..LSQRATAATE...TASTQDSAHDVTAQIDSILETmNP.....AWK.SEI..SLLRNL.NGQI.DLIVKLCRSLSSKDTL
  320-  487 (212.87/124.83)	DASSGAAHKRaaeaaLLAQ..KRAVWDHfidvDAIAS.PETGPAT...ASLSGVTPSTSKAP.ASAPTIEPEVALLLHQL.VDQQAEWAEK.LNSVKSLLL....................SrrLHSNPSVTLEkslTAFYFEMLHAAVEACASVIET.PP.....AFKgAETypALWRNVvCGLLpEVILQIEQWLDATPDL
  491-  554 (39.52/16.29)	GQRQEAPHVR...........................................................................................vesalkatllimadrlticeT..AGQGPSAAAD...T..MNEMMPDVVG.....MDT.PPnqpikAW...................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     264.72|      65|     102|     572|     660|       2
---------------------------------------------------------------------------
  572-  638 (101.57/112.95)	DEFPAGHKLAS..EVQSLPQSLQMDAQLEGLTL.AALFESRFSSGEDPVeLLHrVASDPGTLFT.....FSQQLT
  675-  739 (92.47/52.44)	DPVQMVHPLASllDRQDLDQASDEPSTLGSILLfLQLLCHRYNVGPDRI.....VSANNGAPCF.....FAEYLS
  741-  797 (70.67/35.58)	.........AS..ACHTLSDLSEDDRALVGRWI.HALFGNEGIS.DD...LIQ..ASSPKTLLKlspllFSQSIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     226.21|      52|     102|       5|      57|       3
---------------------------------------------------------------------------
    5-   57 (78.47/46.98)	DVGRAIDTLLSQCLARRLPQSKWLQLLHQLLRRLDeSLAANGASSSTSNAPTA
   62-  109 (72.06/38.99)	AAGLAVKTLLSRTLDQPLIDPLLIEYLQGALYG.....SANRSGIEPDQGPIT
  110-  160 (75.68/41.32)	DVITATLYFLTLVYQQDFHDQNALLTLIQSLESVS.SVLGQGLVATFS.APTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     164.13|      53|      87|     848|     900|       4
---------------------------------------------------------------------------
  848-  900 (87.84/53.37)	LSSAGLQGNL...DVPSNDGTLGNG.LP.RKANSRTVYLDVLALLLDSDSCPSVVRQL
  933-  990 (76.29/45.32)	MESAGCTVSIisaEYPWLRSLLTQSqIPmSDSPQEQVLLRSLSQQLEVSSARDVFRQM
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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 MDP21409 with Med5 domain of Kingdom Fungi
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