<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 MDP28685

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSGVENNTLKKLVKGAIRQNLSGNAFIELFNELNDRLLINEHEIQEVLLELSDDVSRRAENQHKVNYSLTLMTWSMPLLNTFWKLFDGLTLYSQSQYVIQLSNMFMERSKADRIPIELKQELIRLHLPQYTEHFIVSISNFDTLDHDHLSLFNHILMLWTVVIKKYKSLIDETIFKDLSTKITAVLQKFDLRNMLTYFNASVTSFSQSNFTSLQSDAMEGDFKISFLKGTSASQIARGVTSFNANSKKFLHLNQEKAFLWANTVMRNWQFDVDYFLTVFESHFFVRSHSGTQKQFNFCVDLISLIFKGLVNAVHSHEPNYVLMNWRIFLVSKLPIMLKKIISKFINPGLDLEGIAKQSRLEEAILNSFNSLGENPIKTIAAFSINTSKTIDLRQEFLKSCIYHCVLPVSSFHRFFPMESLITAEHLQDAVDHFDDVKSVSDEIITKITETNSDISSLEEQGFFSLLESIAEKLTHSSSKMQQFADQVNGTIAKLIEGKDTEKLSRLLLAITYNYELLHLICFNTKNGPVQIVEPLINYIDSYDMNVDEDDNFQDTYSYFGNILLGTILIIETFQTDVSKFQTTSFTINYMNNFYLRLCDNYSEKCDTSNTEEEEIVNNCKELLSDWVKTLFDENNDGLSDDLIKSVGIKKIHKIVPIVYSQSVTAIISGKIDFQVLNNGLDYLTQVFLVPSCLSFISWLLRKAIIIGPDRENVPLKTIHSLLKQNLEQVEEQNNEAKLIFLMVLKTKGSDIIGSLKRFEHWENNSTVQEIVNITQKSIGNFLQPAVGINLNDDINLYEEFGNTIINLVVKEEKNYRLAFDLFRIIGVEKLIKYIIDSIITFQYSITGSEDVKIFINVAIFLISLFTIGSDKEKWFEYISSQTVEFKTILPSDSAFIAPFNLHYSSVLEETNQPRSFTDDLFSDETNKAGSSVSSIDLVLSNIKNVLNPLLMFRDIEESSNKSSVLKATDVFREIFMYNINAI
Length982
PositionTail
OrganismPichia sorbitophila (strain ATCC MYA-4447 / BCRC 22081 / CBS 7064 / NBRC 10061 / NRRL Y-12695) (Hybrid yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Millerozyma.
Aromaticity0.11
Grand average of hydropathy-0.066
Instability index33.58
Isoelectric point5.19
Molecular weight112648.41
Publications









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

>MDP28685
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     115.81|      41|     324|     335|     379|       1
---------------------------------------------------------------------------
  335-  379 (61.49/48.58)	IMLKKIISKFINPGLDlegIAKQSRLEEAILnSFNS........LG...EN.PIKTI
  666-  718 (54.32/31.31)	IISGKIDFQVLNNGLD...YLTQVFLVPSCL.SFISwllrkaiiIGpdrENvPLKTI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     340.10|      98|     293|     532|     651|       2
---------------------------------------------------------------------------
  141-  222 (113.74/62.12)	FD.TLD.....HDHLSLFNHILMLWTVVIKKYKSliDETIFKDLSTKITaVLQKFDLRNMLTYFNASVTSFSQ.........SNFTSLQSDAMEGDF...............
  386-  447 (72.75/31.56)	...........................................TSKTID.LRQEF.LKSCIYHCVLPVSSF.HRffpmESLIT..AEHLQDAVDH.FDDVK.SVSDEIITKI
  542-  646 (153.61/111.71)	YDmNVDeddnfQDTYSYFGNILLGTILIIETFQT..DVSKFQTTSFTIN.YMNNFYLRLCDNYSEKCDTSNTEE....EEIVNNCKELLSDWVKTLFDENNdGLSDDLIKSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.61|      10|     295|     532|     541|       3
---------------------------------------------------------------------------
  532-  541 (20.08/12.96)	VEPLINY.IDS
  827-  837 (14.52/ 7.28)	VEKLIKYiIDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.07|      17|     477|       6|      22|       4
---------------------------------------------------------------------------
    6-   22 (28.04/18.02)	NNTLKKLVKGAIRQNLS
  488-  504 (28.03/18.01)	NGTIAKLIEGKDTEKLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.66|      14|     477|     309|     328|       5
---------------------------------------------------------------------------
   59-   74 (23.37/ 7.49)	AENQHKVNYslTLMTW
  312-  325 (29.29/18.65)	AVHSHEPNY..VLMNW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.88|      16|      20|     940|     955|       7
---------------------------------------------------------------------------
  940-  955 (28.46/17.10)	SNIKNVLNPLLMFRDI
  959-  974 (26.42/15.39)	SNKSSVLKATDVFREI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.68|      19|      20|     852|     870|       8
---------------------------------------------------------------------------
  847-  867 (25.98/13.02)	GSEdvKIFINVAIFLISLFTI
  868-  888 (29.71/15.92)	GSDkeKWFEYISSQTVEFKTI
---------------------------------------------------------------------------




































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 MDP28685 with Med5 domain of Kingdom Fungi
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