<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 MDP28438

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMAAPELGRWGEYGPRPPARLGARAGQEPATALGAVGTMDLAYVCEWERWPKSTHCPSVPLACAWSCRNLIAFTTDLRNDDQDLTRMIHILDTEHPWDVHSINSGHSEAITCLEWDQSGSRLLSADADGQIKCWSMVDHLANSWESRVGSLVEGDPIVALSWLHNGVKLALHVEKSGASSFSEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSALPVQFYKVCVSVVSEKCRIDTEILPSLFMRCTTDPHRKDRFPAITHLKFLARDMSEQVLLCASSQTSSLVECWSLRKEGLPVNNIFQQIAPVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFHDGSVHIVHRLSLQTMAVFYSSATARSVDEPAIKRSRATSPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSMGHALELGLALRHLLFLLEYCMVTGYDWWDILLHVQPGMVQSLVERLHEEYTRQKAALQQVLSTRILAMKASLCRLSPCTVTRVCDYHTKLFLVAISSTLKSLLCPHFLNTPDKSPGDRLAEICSKITDVDIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGAPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDSQDSMSLLFRLLTKLWICCREEGPASEPDEALVDECCLLPSQLLVPPLDWLPVSDGLVSRLQPKQPVRLQFGKAPVLPGSTPTMQLDGLARIPGQPKIDHLRRLHLGAYPTEECKACARIPGQPKIDHLRRLHLGAYPTEECKACARCGCVTMLKSPNKTAVKQWEQRWTKNCLCGGLWRRMPLSYS
Length892
PositionTail
OrganismHeterocephalus glaber (Naked mole rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Heterocephalus.
Aromaticity0.07
Grand average of hydropathy0.002
Instability index50.93
Isoelectric point8.30
Molecular weight98622.52
Publications
PubMed=21993625

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
catalytic activity	GO:0003824	IEA:InterPro

GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28438
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     147.03|      27|      27|     796|     822|       1
---------------------------------------------------------------------------
  768-  793 (26.46/10.32)	..PKQPvrlQFGKAPVLP.GSTPTMQLDG.
  796-  822 (60.28/31.49)	RIPGQP...KIDHLRRLHLGAYPTEECKAC
  824-  850 (60.28/31.49)	RIPGQP...KIDHLRRLHLGAYPTEECKAC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.88|      63|      93|     221|     295|       2
---------------------------------------------------------------------------
  221-  250 (18.63/12.54)	...................................................................SGQVLtstesLCRLRGRVALADI.AFTGGG....N
  251-  345 (81.21/60.22)	IVVATADGSSALPVQFYKVCVSVVSEKCRI..DTEILPSLfmrcttdphrkdrfpaithlkflardmSEQVL.....LCASSQTSSLVECwSLRKEGlpvnN
  365-  404 (44.05/19.36)	ILSATNDLDRVSAVALPKLPISLTNTDLKVasDTQFYPGL..............................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.35|      40|     188|     460|     506|       3
---------------------------------------------------------------------------
  467-  506 (70.72/46.09)	LVGIDNHG.....KLSMLRISPSMGHALELGLALRHLLFLLEYCM
  653-  697 (65.63/30.27)	LASLPNQGaplrpGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.75|      15|      44|     107|     121|       5
---------------------------------------------------------------------------
  107-  121 (27.60/19.50)	EAITCLEWDQSGSRL
  154-  168 (27.14/19.04)	DPIVALSWLHNGVKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.35|      11|     822|      45|      55|       8
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   45-   55 (26.34/14.16)	EWE.RWPKSTHC
  869-  880 (22.01/10.67)	QWEqRWTKNCLC
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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 MDP28438 with Med16 domain of Kingdom Metazoa
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