<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 MDP08908

Description Mediator of RNA polymerase II transcription subunit 5 (Fragment)
SequenceMSSTTLLKKLLRASLARNTNPKLFASLLEQLLAREQISDAELGEMLLNVADSPVKANSTTSILARRLQIEYVLEFAFSSSENLARFFKLLPQLSLKSQLKYILYFKTQVGKIIDRSLINEFYNGLAQFTIAASPSRPGECSPHSNRLWYHVVFVWGAFIDLDSSIPANPSLKESFQKMALFAGDLEDDYIGALISRKFGAAADPGASLNFQTTRMAKSEEAPTTMPEKSLSLNLNGKKYSNYVSLKKFIWLNFHFQLWKMDTEMSRAFMTFFNLQDLSHTDLAKELICSFLNGAAVAVRLGEEPYVIFNWKNFILTHLAQDLKEIVLSSHAVDHEWHETVSAAITSCNDLVITETKIGGVKESYNLNKEFMRSCLHQELISLEKYIQVFPSEAENLSTSILAHEIENLRLTELITAEFKSRLENVNPEFTSLQESNLIDYFKNLPLTNFRFLNAKQCKLAQLSENLIDNIVREKNNEKLRWISLVFLNVPSIANFIFYQSRKGPWMFLSKIINYIDSESFNVDEDDGNFQDTYACFGVILTSVISVAAFFGIEFASLGLKNSYTIDYINQFYFRLCNMLTNTYTGASEQEKQIISNYENLVTEWANALFDVNNDGLSDDLLKSVNVKQIYK
Length631
PositionTail
OrganismMetschnikowia bicuspidata var. bicuspidata NRRL YB-4993
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Metschnikowiaceae> Metschnikowia.
Aromaticity0.12
Grand average of hydropathy-0.094
Instability index40.17
Isoelectric point5.51
Molecular weight71876.23
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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP08908
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.31|      12|      26|     346|     357|       1
---------------------------------------------------------------------------
  346-  357 (20.95/12.71)	SC..NDLVITETKI
  373-  386 (16.36/ 8.52)	SClhQELISLEKYI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.56|      24|      34|     156|     179|       2
---------------------------------------------------------------------------
  156-  179 (42.35/30.65)	GAFIDLDSSIPANPSLKESFQ..KMA
  191-  216 (37.21/26.03)	GALISRKFGAAADPGASLNFQttRMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.71|      39|      55|     401|     440|       3
---------------------------------------------------------------------------
  401-  440 (58.40/44.20)	LAHEIENLrLTELITAEFKSRLENVNPEFTSLQE.SNLIDY
  459-  498 (60.31/40.69)	LAQLSENL.IDNIVREKNNEKLRWISLVFLNVPSiANFIFY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.08|      13|      16|       6|      20|       4
---------------------------------------------------------------------------
    6-   18 (20.35/17.30)	LLKKLLRASLARN
   23-   35 (20.73/ 8.88)	LFASLLEQLLARE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.26|      27|     161|     101|     155|       6
---------------------------------------------------------------------------
  115-  155 (36.29/75.41)	RSLINEFYNGlaqftiAASPSRPGEcSPHsnrlwyhVVFVW
  284-  310 (51.97/24.85)	KELICSFLNG......AAVAVRLGE.EPY.......VIFNW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.49|      10|      17|      56|      65|       7
---------------------------------------------------------------------------
   56-   65 (16.54/12.85)	ANSTTSILAR
   76-   85 (16.95/13.41)	AFSSSENLAR
---------------------------------------------------------------------------




































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 MDP08908 with Med5 domain of Kingdom Fungi
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