<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 MDP11869

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMAAPEAGRYGECGPRPPARLGARISQDPGTVLGAVGMMDLAYVCEWEKWPKSTYCPSVPLACAWSCRNLIAFTTDLRNDDQDLARMIHILDTEHPWDVHSISSEHSEVITCLEWDQSGSRLLSADADGQIKCWSMADHLANSWESSVGSLVEGDPIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSMSPVQFYKVCVSVVSEKCRIDTEILPSLFMRCTTDVNRKDKFPAITHLKFLARDMSEQVLLCASSQTSSLVECWSLRKEGLPVNNIFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFHDGSVHIVHRLSLQTMAVFYSSAAPRSLDEPAIKRPRTTGPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSLGHPLEAKLALQHLLFLLEYCMVTGYDWWDILLHVQPGMVQSLVEKLHEEYMRQKPALQQVLSTRILAMKASLCKLSPCTVTRVCDYHTKLFLMAISSTLKSLLRPHFLNTPDKSPGDRLAEICAKITDVDIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGSPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGPASEPDEALVDECCLLPSQLLVPSLDWLPASDSLVSRLQPKQPLRLFFGRAPPLPGSATTLQLDGLARAPGQPKIDHLRRLHLGAYPTEECKACTRCGCVTMLNSPNETTAVKQWEQRWIKNCLCGGLWRRVPLSYS
Length866
PositionTail
OrganismDipodomys ordii (Ord's kangaroo rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Castorimorpha> Heteromyidae> Dipodomyinae> Dipodomys.
Aromaticity0.07
Grand average of hydropathy0.028
Instability index49.59
Isoelectric point7.47
Molecular weight95635.06
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

>MDP11869
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     144.15|      47|     188|     109|     156|       1
---------------------------------------------------------------------------
  109-  156 (83.42/52.87)	ITCLEW...DQSGSRLL..SADADGQIKCWSM.ADHL.ANSWESSVGSLVeGD..PI
  305-  360 (60.73/33.63)	ITHLKFlarDMSEQVLLcaSSQTSSLVECWSLrKEGLpVNNIFQQISPVV.GDkqPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.08|      27|     132|      47|      73|       2
---------------------------------------------------------------------------
   47-   73 (53.49/29.24)	EKWPKSTYCPSVPLACAWSCRNLIAFT
  182-  208 (48.59/25.92)	EKFSRVKFSPSLTLFGGKPMEGWIAVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.11|      12|     492|     217|     228|       3
---------------------------------------------------------------------------
  217-  228 (22.09/12.13)	LLKPSG.QVLTST
  692-  704 (20.03/10.31)	LLKPSClPVYTAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.71|      34|     299|     234|     270|       6
---------------------------------------------------------------------------
  234-  270 (52.32/48.73)	LRGRVALADIAFTgggNIVVATADGSSMSPVQFYKVC
  537-  570 (59.39/44.47)	MRQKPALQQVLST...RILAMKASLCKLSPCTVTRVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     173.42|      53|     385|     406|     470|       8
---------------------------------------------------------------------------
  409-  461 (91.09/62.98)	LAFHDGSVHIVHRL.SLQTMAVFYSSAAP.....RSLDEPAIKRPRTTGPAVHFKAMQL
  754-  812 (82.33/35.97)	LDWLPASDSLVSRLqPKQPLRLFFGRAPPlpgsaTTLQLDGLARAPGQPKIDHLRRLHL
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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 MDP11869 with Med16 domain of Kingdom Metazoa
Unable to open file!