<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 MDP25838

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDENQDPIYSLALNCSRRRLPSNLFVNFYNELVNEKYGSMINSGEETDADIKQTNVCEKISSSLLRLLDAEKHFLIVDYVVEVLFINYNKELVKELLPQLYSIKDSSQLVLFLSKASAFFLRLTDKLVIDQICGDLGNVIVPSILSSSFNTQGEELIVAIAKFLRNVLSLSSNPIAISDPKVGDRVRELLNCLSKINRLLYKKVAGDFDSLLRLGGSAPPTAREERHGVSSPSIISPRYLESPINVTKQPQSLIPSSVNHQTVKLARYCKNLWLNSRIMGWRTNDVAFVTKYSKIEAEIMKKTSPSQLNVEAAMKDLIETAFTSFAQFVSNKQYHQANSAFNLLERQWNIFITKQLPLHIMENASDMPHIVINALENIDHKVVKALKSYASDKDDAKNRGEDLFDDLPNKNTDIRHDFLKSLIMIGLQPAAVLNDFLREDQVVDTKSLPTNDTVVIKNAQGVKETVDNFSQFIKDTIEDLDAESMFEATDGSLGNADNGIMQILRKFETLAATKQKDLANVFYDLFRESVSSFDCKTFSKTCCLMCFNMSHSLTTMFAFVNPQKFLAVAIEFVDQIWESSVRKASAGLNDESDFEPNTEFVCFTYALIFIVQVVGTYNVSLIEALSTSSSDPQSSFIVNYITKLGDIAPALKLNSTLDSSEVLKSWVRDLFINGSISDSLMKSANVKDLAVLIPFIFKESLSAVESGSIRDISALVGGFEYFLQPFLIVGLIGIVFWTEQYLTTLRSKDLAKDLLESIFDMLNSVLNPSTLNDESRPLHTLILRLNTVQLLKATRAFQTQTQSSYGTYSSDSEGSTKVDSLISHLEQVARSSILYNVDSSVINSEIGYQRKDINYTPFAITADNSINSILTNQVNSFWNLHSSTYYNIDYLFALIDIITPQRFLEDMLVVLQHKTTDAALPNSRTKGSDGENLFYLDYFFYFLVSHDVMKAENKTDILQYMSSTAESDLIFRKPAHEFQPSAKVEQPSDEDFDMLFGEDTSIPGNESEANINEIKADEISPINPEFLRCSFAAVLHCSLLANKAALESGHTSEVAVDQLTQLHDKYIEILKSSTV
Length1075
PositionTail
OrganismLachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284) (Yeast) (Kluyveromyces thermotolerans)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Lachancea.
Aromaticity0.09
Grand average of hydropathy-0.100
Instability index42.21
Isoelectric point4.97
Molecular weight120617.58
Publications
PubMed=19525356

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

>MDP25838
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     981.39|     225|     409|     338|     562|       1
---------------------------------------------------------------------------
  174-  331 (159.09/89.71)	...................PIAI....SD..PKVgdRVRELLNCLSKINRLLyKK...........VAGDFDSLLRLG....GSAPPTAREERH..GvsspsiisprYLESPIN.VT.KQPQSLIPS...SV.NHQTVKlaryCKNLWLNSRIMGWRTNDV.AFVTKYSK........IEAEIMKKTSP.SQL.NVEAAM....................KDLIETAF.TSFAQFVSN.................................................
  338-  562 (369.10/218.22)	NSAFNLLERQWNIFITKQLPLHIMENASDM.PHI..VINALENIDHKVVKAL.KS...........YASDKDDAKNRGEDLFDDLPNKNTDIRH..D..........FLKSLIM.IG.LQPAAVLND...FLREDQVVD....TKSLPTNDTVVIKNAQGVKETVDNFSQFIKDTIEDLDAESMFEATD.GSLGNADNGIMQILRKFETLAA.....TKQKDLANVFY.DLFRESVSSFDC.KTFSKTCCL..................MCFNMSHSLTTMFAFVNP
  569-  745 (188.53/107.72)	..AIEFVDQIWESSVRKA.SAG.LNDESDFePNT..EFVCFTYALIFIVQVV.GT...........YNVS..........LIEALSTSSSDPQS..S..........FIVNYITkLGdIAPALKLNS...TLDSSEVL.......................KSWVRDL..FINGSISD....SLMKS........AN......................VKDLAVLIP.FIFKESLSAVES.GSIRDISALvggfeyflqpflivgligIVFWTEQYLTTL......
  749-  974 (264.66/154.31)	DLAKDLLESIFDM.LNSVLNPSTLNDESRP.LHT..LILRLNTV..QLLKAT.RAfqtqtqssygtYSSDSEGS.TKVDSL..........ISHleQ..........VARSSIL.YN.VD.SSVINSeigYQRKD.INY....TPFAITADN.SI.NSI.LTNQVNSFWNLHSSTYYNID..YLFALIDiITPQRFLEDMLVVLQHKTTDAAlpnsrTKGSDGENLFYlDYFFYFLVSHDVmKAENKTDIL..................Q..YMSSTAESDLIFRKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.57|      12|      58|      24|      35|       2
---------------------------------------------------------------------------
   24-   35 (22.65/13.77)	LFVNFYNELVNE
   84-   95 (21.93/13.10)	LFINYNKELVKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.61|      16|      55|      59|      78|       4
---------------------------------------------------------------------------
   59-   78 (20.28/24.20)	KISSSLLRLLDAekhfLIVD
  115-  130 (27.33/17.94)	KASAFFLRLTDK....LVID
---------------------------------------------------------------------------




































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 MDP25838 with Med5 domain of Kingdom Fungi
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