<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 MDP29887

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTNESLYSLAVKCSQRQLSSGEFLNLYKEFYNEKLASEAGSVDDDSEPPSNAESKTTATTICTQMAQEFTKIFKEQHNLILIDYLIEILFVNYNPDLIHLFLPLLKTVSTGDGNNDNLLIHFLSKLSAYFVQLRDKLVGDQLVKDLPGVIIPNLLEIQYGNNNELSVALAKCLLVLLKYPSNVLTIESVSCRDNAHHLLSKLSDISRLVYKKLLHTLDNKVNFKDSNGLTKDVSGQEPSSIYSPSITSPQFISSPLFSMKTPSLPNNKDGTVSTMKYKDMKLFRYYKNIWLNNKIMNWEMIGSEFLSKYNSISSTLFPESADGNHVTVPNVDMLLIDLIETSFTCFAQYVSNKQYHRTNSNLNLLERQWIIFISKHLPILLLNHSSKNPQIVTTALEQIDPKVIKAITSYYSEKDDMRVRNDDLFDDFSSTSFDVRHDFIKSLVSLGLQPPTLINEFLREDQAVDPKSLPVTDDLVITTSQGTQETVGDIQSFIISSLDSLELENICSDDVNSESDIPHSNVRSSISGDSFNGIHQILQNNETIPPTKMKEISTVIFELLKDAIAVGNHSRISKICALLCFNFNHSLIAFFSFQSPQGIIEDLLHFVDKVWPNSSHSSKDDNTAPDESNDLFLSFSWALLLLTSINKNIGISLVDVALKSSLDIPLEDSFTIKFIDQLTEIPDDYSIEPQNRTLPEVQTQSHKLVRNWLSDLFINGSLSDQLTQNTDAKQLATLLPFILKQVLYALECNVVTDMNNVIGGFEYFLQPFMIVGLIKIVFWLEKYLSYLNNEPELVELTQKVLVIMNSLLNPTTLNEDSRTFHCAALRLNAIPLLKMLRKFCVPQTQTEYGVYSSDTQEPPMVESLIKKLISVINFAPVYNMDPRIVSTDNIYLQQKPIGYGKLQILNENPIDKIMTNQINSFWNLHSSTYYNIDFLNEIIKLITPKKFFFDVLNTLTYKISVYGVPAARNKMSTVDSDHVIDYLFYFLVLHDCESQVDAGYMVQLLSGNLEIDNSAIKPKKDLVKAKEQPADDLVGVPKSEIAQDDDFVMLFGENDTSSHNMNDDMQDVHFESSEDDEVKKLQKFYALKKDSFGVILYQLKLVHDAAVKDGDLSKTEYEKFNKHYEKYLSMLKTFIF
Length1136
PositionTail
OrganismKazachstania naganishii (strain ATCC MYA-139 / BCRC 22969 / CBS 8797 / CCRC 22969 / KCTC 17520 / NBRC 10181 / NCYC 3082) (Yeast) (Saccharomyces naganishii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.09
Grand average of hydropathy-0.161
Instability index38.01
Isoelectric point5.00
Molecular weight129009.61
Publications
PubMed=22123960

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:EnsemblFungi
GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro
GO - Biological Process
histone H3 acetylation	GO:0043966	IEA:EnsemblFungi
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblFungi
transcription by RNA polymerase II	GO:0006366	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP29887
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.80|      17|      49|      13|      32|       1
---------------------------------------------------------------------------
   13-   32 (27.13/26.51)	CSQrqlSSGEFLNLYKEFYN
   62-   78 (32.67/22.06)	CTQ...MAQEFTKIFKEQHN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.77|      39|      49|      81|     125|       2
---------------------------------------------------------------------------
   81-  125 (51.42/43.57)	LIDYLIEILFVNynpDLIHLFLPLLKTVSTgdGNNDNLLIHfLSK
  133-  171 (65.35/34.56)	LRDKLVGDQLVK...DLPGVIIPNLLEIQY..GNNNELSVA.LAK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.01|      30|      49|     579|     608|       3
---------------------------------------------------------------------------
  579-  608 (55.48/34.40)	LCFNFNHSLIAFFSFQSPQGI..............IED..LLHFVD
  631-  676 (36.52/20.07)	LFLSFSWALLLLTSINKNIGIslvdvalkssldipLEDsfTIKFID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.60|      45|      66|     789|     836|       4
---------------------------------------------------------------------------
  789-  836 (67.28/48.42)	NEPELVE.LTQKVLVIMNslLNPtTLNEDSRTFHCAALRLNAIPL....LKML
  856-  905 (68.32/39.54)	QEPPMVEsLIKKLISVIN..FAP.VYNMDPRIVSTDNIYLQQKPIgygkLQIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.66|      39|      42|    1007|    1047|       8
---------------------------------------------------------------------------
  465-  500 (40.29/21.79)	.....DPKSLPVTDDL..VITTSQGTQETV.GdIQSFIISSLDS.
 1007- 1047 (57.85/41.70)	GnlEIDNSAIKPKKDL..VKAKEQPADDLV.G.VPKSEIAQDDDF
 1052- 1092 (55.52/33.79)	G..ENDTSSHNMNDDMqdVHF.ESSEDDEVkK.LQKFYALKKDSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.73|      31|      72|     190|     221|      10
---------------------------------------------------------------------------
  190-  214 (34.19/21.09)	...............................................SCRD.NAHHLLS..KLSDISRLVYKKLL
  216-  289 (26.63/16.97)	TLDNKVnfkdsngltkdvsgqepssiyspsitspqfissplfsmktpSLPN.NKDGTVStmKYKDMKLFRYYKNI
  290-  313 (28.91/12.90)	WLNNKI.........................................MNWEmIGSEFLS..KYNSIS........
---------------------------------------------------------------------------




































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 MDP29887 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




NANANA









Molecular Recognition Features






MoRF SequenceStartStop




1) NLYKEFYNEKLAS
25
37