<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 MDP24644

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMSDRVSWSKNGFIAYSGAGNSIHLTYLENINGREWQLAEPQKFKITGHDGSVAAGPLSAVSWSNLSTDLAVCDHQGSFYVLLAGVGVIDHDTNGTHNGVVNGQRNGSQKPSTAYELTSYNQLVVTYRDMVGERNEVVALKWLNVEKNQIIPKPAVLVQTANESSAAYQYGVSSHQPSGLSHPISSKQACVVLRRNGDLTLYYQGEHKVDYYKVSTKLEGTYITHGSLGLTKDKSLVVVSHNGLTGKISMHTIRIDWGFLAESALKQKTDPHYNTPESSKTPPKLSVEHSYDMLPQPFVVDATNEQSQDGYTLSSIDSISTSANSESNLDIFISYKSGNSTHLYQYEVGYADDVISPEFAELGRKKGIQENQKTCPKLILVSRAVRPGVLLSVQAAFSDIFVVFNYNDGRVDIMDRRKMDIIDPTKSEMPPHTVSSIFDVGFSFQTPGDKNIIPGMVAYSPTLTARVYAFPGEDSPRLHLQTVSKIDSVVNPKVLFLTSVGFAFCHSYACYSNICADDFIVMIQQDILRVTKILRKTHQEKSHHIEVVVTKFIESIICESHKAINFQLDAFGKESVDKLLSNPPLQKLLSLQMALGELQDHGKLISDLAWIVLNLRSTSFGIMFSLSSIYRQVSKKKPSEDTMQDSVARAECIVSLIGSVRWLIDLIIYLNQEFNQLANSKGDPSISKLTMKNSVVLPIVLSKVPRLFLMYALSSIQKTHETLKKLHKDLAESNKLFQPMKEALNRYFTTCANSPLQISLFESFLRDTDAVIAKEISQNPKFEKKGYQLRVEQKLVFQGEISEEYIPIATAVVGKYANNISLDMKVSELFFYDVDWIGVGIQWFNDECVVVEGSHEVLLQYPQEPKQMVPRLAYGTRDCIDALRKVVIPRGKGGAKVRKCTRCRSVSLVNDPLVFNAPTTLGLWTMVFQRSCICGSIWINTE
Length941
PositionTail
OrganismMeyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) (Yeast) (Candida guilliermondii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Meyerozyma.
Aromaticity0.09
Grand average of hydropathy-0.173
Instability index36.74
Isoelectric point7.32
Molecular weight104939.70
Publications
PubMed=19465905

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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP24644
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.74|      28|      58|     415|     443|       1
---------------------------------------------------------------------------
  415-  443 (46.39/37.16)	RRKMDIIDPTKSEMPPHtVSSIFDVGFSF
  476-  503 (46.35/31.90)	RLHLQTVSKIDSVVNPK.VLFLTSVGFAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.49|      39|     317|       3|      42|       2
---------------------------------------------------------------------------
    3-   42 (71.16/46.79)	DRVSWSKNG......FIAYSgAGNSIHL.....TYLENIN.......GREWQLAEPQK
  316-  372 (51.33/28.55)	DSISTSANSesnldiFISYK.SGNSTHLyqyevGYADDVIspefaelGRKKGIQENQK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.15|      23|     318|     451|     473|       6
---------------------------------------------------------------------------
  451-  473 (40.00/26.23)	IIPGMVAYSPTLTARVYAFPGED
  770-  792 (36.15/23.01)	VIAKEISQNPKFEKKGYQLRVEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.88|      25|     234|     575|     610|       8
---------------------------------------------------------------------------
  575-  610 (30.33/42.71)	VDKLLSNpplqklLSLQMALGELqdhgkLISDLAWI
  812-  836 (46.54/28.77)	VGKYANN......ISLDMKVSEL.....FFYDVDWI
---------------------------------------------------------------------------




































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 MDP24644 with Med16 domain of Kingdom Fungi
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