<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 MDP21849

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSALSTWRTFLNHSLATRLEAPDFESYVQILASKHPLPASRTSDIFLGPTESNSASLDPRIPRYVQILLGLELVTVPSLLRALLRYSTASGATDVVHGISDRQREGGKDGEAQGQKKDSVKRWSDSYAAEEVLFYRLAKHVSSGTSPKNIQEAVALILVCIQWMVVVANANSAAQDVLELSGSHVPELNAQIMALGTLVVAVVENAQVLSALSKGSVPKGTGKELSETLGNLIAILLQSNPQSLSAARLEVFRTQTLVSIEPVDKKEISANKEIDDILDEGIGLGIDSVVVEDLPTLNSRAGLYIYLNALLVGRPLIDDNAIFAYLHNRYQGDIQSTMNDLILASFDILADAASRNERIQATTLLKSFLINKVPLLLATLSSSLFPPLTSEYCITEALNHVDTNAFPTFSNMFDESSTNNLFSDSVRQDFCFACCLHGLIAETSIETLLGDVPLQSLPAGGRYVKDDLVQQYLSDPERAEGLIDELEHMDGNVGAVSQAITEVMGRLCNDKETMSLKGLCSQLARKPASLDVMLLFDKPTTILQPICDVLDNWRYDDDQGEYQPVYEEFGSILLLVLSFAHRYNLSTFDCGIRTPDSFVAQLLTHGHLSRAMEDLTDQEQNHLDGWIRGLFDNESGGLGDELMSSCPPQDFYLLVPTLFHHIVLACSTKNLSDEALKGGLEYLVDTFLLPSLIPGITWLSAHLWESRGDANAVLQILSALIMNPTSISNNTEASQMLNSILNIIAKDLEHSLRWFQKAEPSRQDIAPLLKALSGNLGWERRGASEHTELEIWTSTAGGGLTAAVRNTMQNLIQWGLNPGININPANYTHRQILVAVKMLGAKRILNVIIEEVKTQEETGNGSVAIDVATALICAPDAASWDAAFGGLGMLGENPIQPLQRRMNLREALKFEADNAPKVHKTDPFHAETIIRLYRKTEAQLAMPQQTLMADDGGLGALDQALDAAAGGMDVDSGMAGVGMSDVGGAGGLGDAQGMDGVLGDDQGLMSGLMGGDHGGDLLDGFGDGQDLGDGMGFA
Length1034
PositionTail
OrganismPhialophora cf. hyalina BP 5553
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Pleuroascaceae> Venustampulla.
Aromaticity0.06
Grand average of hydropathy-0.032
Instability index42.16
Isoelectric point4.64
Molecular weight111825.49
Publications
PubMed=30018880

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

>MDP21849
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     161.09|      32|      36|     952|     983|       1
---------------------------------------------------------------------------
  449-  477 (36.64/17.50)	..LGDVPlQSL..PAGGRYVKDD.LVQQYLSDPE
  491-  510 (24.41/ 9.19)	GNVGAVS.QAITEVMGRLCND.............
  952-  983 (57.38/31.59)	GGLGALD.QALDAAAGGMDVDSG.MAGVGMSDVG
  986- 1014 (42.65/21.58)	GGLG..DaQGMDGVLG..D.DQGlMSGLMGGDHG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     120.05|      32|      34|     180|     211|       2
---------------------------------------------------------------------------
  146-  180 (37.64/20.08)	SPKNIQEAVALILV.cIQWMVVVANA.NsaAQDVLEL
  181-  212 (49.77/28.68)	SGSHVPELNAQIMA..LGTLVVAVVE.N..AQVLSAL
  213-  246 (32.64/16.53)	SKGSVPKGTGKELSetLGNLIAILLQsN..PQSLSA.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.67|      10|      35|      22|      31|       3
---------------------------------------------------------------------------
   22-   31 (19.61/13.05)	PDFESYVQIL
   59-   68 (20.06/13.51)	PRIPRYVQIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.85|      24|      35|     638|     662|       4
---------------------------------------------------------------------------
  638-  662 (42.66/34.03)	LGDELMSSCPPQ..DFYLLvPTLFHHI
  671-  696 (37.18/24.12)	LSDEALKGGLEYlvDTFLL.PSLIPGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.65|      13|      25|     511|     523|       9
---------------------------------------------------------------------------
  511-  523 (22.80/17.26)	KETMSLKGLCSQL
  538-  550 (23.85/18.44)	KPTTILQPICDVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.91|      36|     150|     705|     740|      10
---------------------------------------------------------------------------
  705-  740 (59.18/34.34)	ESRGDANAVLQILSALIMNPTSISNNTE..ASQML..NSI
  856-  895 (52.73/29.86)	EETGNGSVAIDVATALICAPDAASWDAAfgGLGMLgeNPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.78|      22|      26|     896|     917|      11
---------------------------------------------------------------------------
  896-  917 (37.91/31.47)	QPLQRRMNLREALKFEADNA.PK
  922-  944 (33.87/27.23)	DPFHAETIIRLYRKTEAQLAmPQ
---------------------------------------------------------------------------




































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 MDP21849 with Med5 domain of Kingdom Fungi
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