<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 MDP26561

Description Mediator of RNA polymerase II transcription subunit 16
SequenceGGCGPRPPARQRGPRGDPARPPAGEPAALAVGPVACGHAMDLAYVCEWERWPKSTHCPSVPLACAWSCRNLIAFTTDLRNDDQDLTRMIHILASQHPVHTLVSGTHLVPLPCCGLPPTGSRLLSADADGQIKCWSMADHLANSWESHVGSLVEGDPIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSASPVQFYKVCVSVVSEKCRIDTEILPSLFMRCTTDLNRKDKFPAITHLKFLARDMSEQVLLCASSQTSSIVECWSLRKEGLPVNNVFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFHDGSVHIVHRLSLQSMAVFYSSAAPRAADEPAIKRPRTAGPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSMGHTLDVSLALRHLLFLLEYCMVTGYDWWDTLLHVQPGMVQSLVEKLHEEYTRQNAALQQVLSTRILAMKASLCKLSPCTVARVCDYHAKLFLVAVSSTLKSLLRPHFLNTPDKSPGDRLTEVCTKITDADIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGSPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGPTSEPDEALVDECCLLPSQLLIPSLDWLPVSDGLVSRLQPKQPLRLHFGKAPTLPTSASTLQLDGLIRAPGQPKIDHLRRLHLGAYPTEECKTCTRCGCVTMLRSPNKTTAVKQWEQRWIKNCVCGGLWRRVPLSYP
Length867
PositionTail
OrganismCanis lupus familiaris (Dog) (Canis familiaris)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Canidae> Canis.
Aromaticity0.06
Grand average of hydropathy0.035
Instability index48.66
Isoelectric point8.62
Molecular weight95064.54
Publications
PubMed=16341006

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	IBA:GO_Central

GO - Biological Function
GO - Biological Process
positive regulation of transcription, DNA-templated	GO:0045893	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26561
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.75|      23|      25|     737|     761|       1
---------------------------------------------------------------------------
  737-  761 (35.71/26.65)	EALVDEccLLPSQ...LLIPSLDWLPVS
  762-  787 (35.04/17.61)	DGLVSR..LQPKQplrLHFGKAPTLPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.95|      23|      27|     335|     361|       3
---------------------------------------------------------------------------
  335-  361 (36.91/33.53)	WSLrkegLPVNNVFQQISPVVGDKQPM
  365-  387 (39.04/24.70)	WRI....LSATNDLDRVSAVALPKLPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.45|      14|      32|     136|     149|       4
---------------------------------------------------------------------------
  136-  149 (26.93/19.73)	MADHLANSWESHVG
  169-  182 (23.53/16.24)	LALHVEKSGASSFG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.02|      26|      33|     664|     691|       5
---------------------------------------------------------------------------
  664-  689 (46.06/31.69)	PLRPGHSFLRDGTSL..GMLRELMVVIR
  700-  727 (42.97/21.59)	PVYTATSDTQDSMSLlfRLLTKLWICCR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.50|      15|      27|     820|     834|       8
---------------------------------------------------------------------------
  820-  834 (30.13/16.69)	ECKTCTRCGCVTMLR
  846-  860 (31.37/17.66)	EQRWIKNCVCGGLWR
---------------------------------------------------------------------------




































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 MDP26561 with Med16 domain of Kingdom Metazoa
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