<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 MDP28688

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSGVENNTLKKLVKGAIRQNLSGNAFIELFNELNDRLSINEHEIQEVLLELSDNVSRRAENQHKVNYSLTLMTWSTPLLNTFWKLFDGLTLYSQSQYVIQLSNMFMERSKADRIPIEIKQELIRLHVPRYTESFISSISNFDTLDHDHLSLFNHILMLWTAIIKKYKSLIDDTIFKDLSSKITAALQKFDLKNMLTYFNASLASFSQSTFTSLQSDAIDGDFKISFLKGNSASQIARGVTSFNANSKKFLHLNQEKAFLWANTVMRSWQFDVDYFLTVFESHFFVRSHSGTQKQFNFCVDLISLIFKGLVNAVHSHEPNYVLMNWRIFLVSKLPIMLKKNISKFTNTGLDLEGIAKQSRLEEAILSSFNSLGEKPMKTISAFSINTSKAIDLRQEFLKSCIYHCVLPVSSFHRFFPMESLITPEHLQDAVDHFDDVKSVSDEIIPKITETNSDISSLEEQGFFSLLESIAEKLTHSSSKMQQFADQVNGAIAKLIEGKDTEKLSRLLLAITYNYELLHLICFNTKKGPVQIVEPLINYIDSYDMNVDEDDNFQDTYSYFGNILLGTILIIEIFQADVSKFQTSSFTINYMNNFYLRLCDNYSDKCDTSNGEEEEIVNNHKELLGDWVKTLFDENNDGLSDDLIKSVGIKKIHKIVPIVYSQSVTATISGKIDFQVLNNGLDYLTQVFLVPSCLSFISWLLRKAIIIGPDRENVPLKTIHSLLKQNLEQVEEQNNEAKLIFLMVLKTKGSDIIGSLKRFERWENNSTVQEIVNITQKSIGNFLQPAVDINLNDDINLYEEFGNAIINLVVKEEKNYRLAFDLFRIIGVEKLIEYIIDSIITYQYSITGSEDVKIFINVAIFLISLSSIGSDKEKWLEYISSQTVEFKTLSPSDSAFTAPFGLHYSSILEETNQPRSFADDLFSDEMNKADSTVSSVDLVLSNIKNVLSPLLMFRDIEESSNKSSVLKATDVFREIFMYNINAI
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.
Aromaticity0.10
Grand average of hydropathy-0.101
Instability index36.67
Isoelectric point5.19
Molecular weight112167.57
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

>MDP28688
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.53|      16|      20|     940|     955|       1
---------------------------------------------------------------------------
  940-  955 (28.12/18.65)	SNIKNVLSPLLMFRDI
  959-  974 (26.42/17.08)	SNKSSVLKATDVFREI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.44|      11|      20|      28|      38|       2
---------------------------------------------------------------------------
   28-   38 (18.93/ 9.91)	ELFNELNDRLS
   46-   56 (17.52/ 8.65)	EVLLELSDNVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.66|      20|      20|     833|     852|       3
---------------------------------------------------------------------------
  833-  852 (33.85/21.04)	YIIDSIITYQYSITGSEDVK
  854-  873 (31.81/19.33)	FINVAIFLISLSSIGSDKEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.91|      12|      21|     689|     702|       4
---------------------------------------------------------------------------
  689-  702 (17.78/15.74)	VPscLSFISWLLRK
  713-  724 (21.13/10.63)	VP..LKTIHSLLKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      91.56|      21|      22|     160|     180|       5
---------------------------------------------------------------------------
  138-  157 (18.50/ 8.28)	...ISNF..DTLDHDhlSLFN.HILM
  160-  180 (32.89/21.49)	TAIIKKY..KSLIDD..TIFK.DLSS
  183-  204 (19.80/ 9.48)	TAALQKFdlKNML....TYFNaSLAS
  206-  222 (20.36/ 9.99)	SQ..STF..TSLQSD..AIDG.DF..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.20|      40|      48|     408|     449|       6
---------------------------------------------------------------------------
  408-  449 (66.26/56.14)	VSSFHR..FFP.MESLItpEHLQDA...VDHF.DDVKSVSDEIIP.KITE
  454-  501 (43.94/29.25)	ISSLEEqgFFSlLESIA..EKLTHSsskMQQFaDQVNGAIAKLIEgKDTE
---------------------------------------------------------------------------




































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 MDP28688 with Med5 domain of Kingdom Fungi
Unable to open file!