<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 MDP24485

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMVSPVLRVFSRVVLTTVLGRTDEDTEGQRGPCHTALEWLRQDLNSSSRSRGFCHVVPPCSQGCDSQKGVLGSQRQTPEGQARAGGRGCPELTPPPPPQSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSASPVQFYKVCVSVVNEKCRIDTEILPSLFMRCTTDLNRRDRLPAITHLKFLARDMSEQVCPPGHPVVLLCASSQTSSVVECWSLRKEGLPVNNIFQQLSPAVGDKQPTILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFHDGSVHIVHRLSLQTMAIFYSSAAPRSVDEPAIKRPRATGPAVHFKAMQLSWTSLALVGIDNHGRLSMLRISPSMGHSLDAGLALRHLLFLLEYCMVTGYDWWDILLHVQPSMVQSLVEKLHEEYTRQKAELQQVLSTRILAMKASLCKLSPCAVTRVCEYHAKLFLIAASSTLKSLLRPHVLNTPDKSPGDRLTEICAKITDVDIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGSPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGPTSEPDEALVDECCLLPSQLLIPSLDWLPVSDGLVSRLQPKQPLRLHFGKPPALPGSATSLQLDGLIRAPGQPKMDHLRRLHLGAYPTEACKACTRCGCVTMLKSPNKTTAVKQWEQRWIKNCLCGGLWWRMPLSYP
Length798
PositionTail
OrganismPhyseter macrocephalus (Sperm whale) (Physeter catodon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Artiodactyla> Whippomorpha> Cetacea> Odontoceti> Physeteridae> Physeter.
Aromaticity0.06
Grand average of hydropathy-0.007
Instability index53.94
Isoelectric point8.87
Molecular weight87711.14
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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP24485
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.91|      24|      34|     689|     720|       1
---------------------------------------------------------------------------
  689-  713 (42.50/37.95)	LPVsDGLV.SRLQPKQP..LRLHFGKPP
  722-  748 (37.42/15.01)	LQL.DGLIrAPGQPKMDhlRRLHLGAYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.05|      27|      35|      40|      73|       2
---------------------------------------------------------------------------
   40-   67 (48.28/23.06)	RQDLNSSSRS..RGfCHVV..PPCSQGCDSQK
   74-  104 (41.77/25.98)	RQTPEGQARAggRG.CPELtpPPPPQSGASSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.57|      19|      37|     402|     422|       3
---------------------------------------------------------------------------
  402-  422 (31.47/26.51)	GIDNHGRLsmLRISPSMGHSL
  442-  460 (39.10/25.60)	GYDWWDIL..LHVQPSMVQSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.82|      33|      35|     595|     627|       4
---------------------------------------------------------------------------
  114-  144 (19.20/ 6.15)	...........SPSL..TLFggkpMEGWIAVTVSGlvtvsLLKP
  595-  627 (59.48/33.58)	PLRPGHSFLRDGTSL..GML....RELMVVIRIWG.....LLKP
  631-  662 (51.13/27.89)	PVYTATSDTQDSMSLlfRLL....TKLWICCRDEG........P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.53|      12|      37|     494|     508|       5
---------------------------------------------------------------------------
  494-  508 (18.16/20.52)	SPC.AVTRVCeyhAKL
  532-  544 (18.37/ 9.55)	SPGdRLTEIC...AKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.13|      14|      37|     348|     361|       6
---------------------------------------------------------------------------
  348-  361 (24.16/15.66)	VHI.VHRLSLQTMAI
  386-  400 (20.97/12.61)	VHFkAMQLSWTSLAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.19|      19|      41|     273|     291|      11
---------------------------------------------------------------------------
  273-  291 (33.17/21.87)	LPVNNIFQQLSPAVGDKQP
  299-  317 (30.02/19.07)	LSATNDLDRVSAVALPKLP
---------------------------------------------------------------------------




































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 MDP24485 with Med16 domain of Kingdom Metazoa
Unable to open file!