<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 MDP28866

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDGRVIRGVQRAALEQWSEFIAKSLAHRLDPDKFETYVPFLQAKHPLPPAAVADLFLRPQPHNHESLDPRVPRYLQVLSNLNYIDTPSILKALFRYSTSRAHSRDAAQPADGDVQRPNMLHWGSSYAAEEVMFYRLTKSVAQGTAIQNTGSGLEIASIMAKWIALFTDAATAFTVDVMGQLHNSQVREEMESARAAFVALLLGVCENQVVLKAMSKPEAQGTRKALSESLANFVPTIMQSAGPIATRLDMFRTSTLAGFEPVDEQKNKSNAEIEDLFDSTVALENFVISELPIVNSRAGLYIYLNAALVGRPLIDDHAIFNYLNNRYQGDVQTTTVDLILASFDVLANAASRNEGHQAAHLLRSFLMNKLPILIESLSKHMYGPVNAEYCITEALGRVDTTTFPTLSSMFDETRSNNPFTDSVREEFCWACCLHGLVRESSIETLLGETPYQSLPAGGRYLKENLVAECLADPERMQALIGELDNKDGNAGAVCQALTEVLGQLCRNKETMSLKLLCSQLAQKPLSLDVMLMFEKPATILHPLCDLLDSWKYDEDQGEYQPVYEEFGSILLLVMAFAYRYGLSASDMGVTSSDSFVARLLGQGHQSRPFDELSDQEKGHLNGWIHGLFDSEAGGLGDELMSSCPPQDFYLLVSTLFQNIVLAFGTGHLAEESLRGGIEYLVDTFLLPSLVVAIAYLANSLWIERSDCQKAIVRVLSSVLAPTSISNEAQAMLTSVMNIVAKPLEHSLRAYQRSDPKSQEVEPLLKAIKDSIPLSRRTGAADHTELDAWSLGGFSNSIRQTLQQLVQWSIHPTMDRMPPAYTHRQMLVALKLLGAKRLLQLLYEDIRQQTDTGSGSIIYDVVTAIVCAPDVVNTPSNPVNFLDNSGNVPVPTQRKLTLREVLKSDAEDCKRLQKTDMNLAEIVVRLYRKVESQMAVSQAQAMQADTMLQSDLGLSLDPGAGSLDDAMAAATANVVQGDGISVDNVSLDLGLGGVGGDLGLGGSSNNGGGSLDLGADDIFSGLGAGDDFQWDNMDLS
Length1035
PositionTail
OrganismColletotrichum higginsianum (strain IMI 349063) (Crucifer anthracnose fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Glomerellales> Glomerellaceae> Colletotrichum> Colletotrichum destructivum species complex.
Aromaticity0.07
Grand average of hydropathy-0.093
Instability index40.71
Isoelectric point4.86
Molecular weight113261.31
Publications
PubMed=22885923

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. 
ECO:0000256	RuleBase:RU364142
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

>MDP28866
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.18|      37|      45|     950|     986|       1
---------------------------------------------------------------------------
  950-  986 (64.25/35.33)	DLGL..SLDPGAGSLDDAMAAATANVVQGDGISVDNVSL
  996- 1034 (60.93/33.15)	DLGLggSSNNGGGSLDLGADDIFSGLGAGDDFQWDNMDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     276.11|      93|     218|       7|     115|       2
---------------------------------------------------------------------------
    7-  115 (141.82/176.17)	RGVQRAALEQWSEFI......AKSLAHRLDPDKFETYVPF..LQAKHPLPPAAVADLFlrpqpHNHESLD...........PRVPRYLQVLSNLnyIDTPSI.LKALFRYSTSRahsrdaAQpadGDVQ
  220-  332 (134.30/117.27)	QGTRKALSESLANFVptimqsAGPIATRLDMFRTSTLAGFepVDEQKNKSNAEIEDLF.....DSTVALEnfviselpivnSRAGLYIYLNAAL..VGRPLIdDHAIFNYLNNR......YQ...GDVQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.99|      22|      37|     385|     406|       4
---------------------------------------------------------------------------
  385-  406 (38.96/24.66)	VNAEYCITEAL.GRVDTTTFPTL
  423-  445 (37.03/23.10)	VREEFCWACCLhGLVRESSIETL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.86|      25|     216|     711|     736|       5
---------------------------------------------------------------------------
  711-  736 (35.66/31.21)	IVRVLSSVLAPTSISnEAQAMLTSVM
  922-  946 (42.20/31.40)	VVRLYRKVESQMAVS.QAQAMQADTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.19|      15|     216|     447|     461|       6
---------------------------------------------------------------------------
  447-  461 (27.69/15.83)	GETPYQSLPAGGRYL
  636-  650 (27.82/15.94)	GDELMSSCPPQDFYL
  666-  680 (24.67/13.27)	GHLAEESLRGGIEYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.54|      30|     395|     483|     513|       7
---------------------------------------------------------------------------
  483-  513 (50.04/31.35)	LDNkDGNAGAVCQ...ALTEVL...GQLCR..NKETMSL
  881-  918 (39.50/20.26)	LDN.SGNVPVPTQrklTLREVLksdAEDCKrlQKTDMNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.33|      15|      16|     744|     758|       8
---------------------------------------------------------------------------
  744-  758 (27.12/17.58)	EHSLRAYQRSDPKSQ
  761-  775 (25.22/15.84)	EPLLKAIKDSIPLSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.44|      24|      25|     172|     195|       9
---------------------------------------------------------------------------
  172-  195 (38.98/23.36)	AFTVDVMGQLHNSQVREEMESARA
  196-  219 (38.60/23.06)	AFVALLLGVCENQVVLKAMSKPEA
  595-  616 (28.87/15.54)	.FVARLLGQGHQSRPFDELSDQE.
---------------------------------------------------------------------------




































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 MDP28866 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




NANANA









Molecular Recognition Features






MoRF SequenceStartStop




1) LGAGDDFQWDNMDL
1021
1034