<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 MDP06860

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLLYTVNRRSSSKFFSNQECLYNGQSLCSLSSRNIVAFTTMTELDDSSGKTRGCHVYVADLNMPWHAHKVLSNKHNITALEWDLPGDKLVMADTAGNVQLWMFKDHILNDWVLIGSAYFPGEHILGAAWFHNGKKTGLVTEKRDSIHYSEKFNHLLFAPSVRQFGGRAAEGVLVVSTTGMVGAIMITKDLQNPICYSTESLGNTRHRITAVDLCYGKNGHFLVAVSSGSICLPIRCFRVLVRKNDDKCTITSQALPSFFLQDGAPKDNSCTVVTHLKFVVREDADSLVIAANSENGGFVEVWELREKSQPVHKLFQPKTLEPFKTVVWQYQSQYRCQSPVTAIATTKLSIVTTLPPPSYVIIALADSSVHCLNRLDCLKEVAFSSLNTSWRPDEPSNKYFKNSVSIAHMDLSWLGCVLLACDTQGNMYLYKLLPDGTSMSLSYACTLLEYCLVTGLDWLDILLCLRSSMIEALCERLDVSFNRQLQSTQQYHYILFLSIKTSLYRMLVTGQSKAADLSSLLMIHSVATAFKSLLRPSDLISHDKGPAESLAAVITDIITDVDKVLLHLDPKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRMQVKTGGYELLKDHKALNTVRELLVIIRIWGLLRPSCLPVFLRSADNLDVLALLFCLLSKLVQPNGDTQQQVDDGLIGHSKRNTTHVQKEKVKSIESIMTTKLAIKHKDSFVLKENRLHEKNYTIQQSRLKRYEHLSLPCSTLSVFVVYWFVLCPLIWAICYKFAYWPSYWSFLFWAVVFLIWIVIMCGLIIFWRRFQVEQSLEINAISKYGSDKERRPMNVHQISFEGEEFLGIKKWNDSHESESKIDRENLRRDLPPLVIHKQISGENIEDTDGMVCVEENKKTRLSIASDYAQKSPLQDYLKLVTVSPSEDGEVKSPKTPMSPRDLFFIDLIREAEKVERSLKTRTHFFPSETTKSDSAETVKSITNETDMENVEHRKDVKDTKDENLKDKKDNKLRLKRESNECCLLPNQIMIPQLHQGNSITAIVSPILFYQNLPLQLEYGVEPEQLVFTPEMNFVEGCMHSGQIVDTIRHLYLGRQPLLVKQCTRCGGKAQVQNMTRTAAIRAWDQRWTRACRCGGIWRIHKASQ
Length1137
PositionTail
OrganismTrachymyrmex septentrionalis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Trachymyrmex.
Aromaticity0.09
Grand average of hydropathy-0.169
Instability index47.44
Isoelectric point8.14
Molecular weight129264.63
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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06860
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.84|      24|      27|     398|     422|       1
---------------------------------------------------------------------------
  398-  422 (42.31/37.71)	NKY.FKNSVSIAHMDLSWlGCVLLA.C
  427-  452 (37.53/27.34)	NMYlYKLLPDGTSMSLSY.ACTLLEyC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.66|      25|      27|    1074|    1100|       2
---------------------------------------------------------------------------
 1075- 1100 (41.58/32.84)	QIVDTIRHLYL.GRQPLLVKQCtRCGG
 1103- 1128 (44.08/24.62)	QVQNMTRTAAIrAWDQRWTRAC.RCGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     240.86|      77|     196|      24|     107|       3
---------------------------------------------------------------------------
   24-  107 (128.29/101.75)	NGQSLCSLSSRNIV....AFTTMTELDDSSgktrgChvYVADLNMPWHAHKVLSNKHN....ITALEWDL..PGDKLVMA...DTAGNVQLWMFKDH
  219-  308 (112.57/72.98)	NGHFLVAVSSGSIClpirCFRVLVRKNDDK.....C..TITSQALPSFFLQDGAPKDNsctvVTHLKFVVreDADSLVIAansENGGFVEVWELREK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.57|      26|      99|     486|     511|       5
---------------------------------------------------------------------------
  486-  511 (47.56/28.01)	LQSTQQ.YHYI..LFLSIKTSL..YRMLV.TG
  581-  612 (28.01/13.87)	LQSLQQlIQWVadLALNLLARLpeQRMQVkTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.36|      12|      15|     762|     773|       6
---------------------------------------------------------------------------
  762-  773 (26.74/15.21)	LIWAI..CYKFAYW
  787-  800 (20.62/10.14)	LIWIVimCGLIIFW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.47|      40|     270|     696|     738|       7
---------------------------------------------------------------------------
  696-  738 (57.98/50.89)	EKVKSIESiMTTKLAIKH.KDSFVLKENRLHEKNYtiQQSRLKR
  969- 1009 (62.49/43.10)	ETVKSITN.ETDMENVEHrKDVKDTKDENLKDKKD..NKLRLKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.44|      22|      26|     801|     822|       8
---------------------------------------------------------------------------
  801-  822 (36.58/30.15)	RRFQVEQ....SLEINAISKYGSDKE
  824-  849 (35.86/29.38)	RPMNVHQisfeGEEFLGIKKWNDSHE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.68|      16|     194|     457|     472|       9
---------------------------------------------------------------------------
  457-  472 (29.86/21.43)	LDWLDILLCLRSSMIE
  654-  669 (26.83/18.35)	LDVLALLFCLLSKLVQ
---------------------------------------------------------------------------




































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 MDP06860 with Med16 domain of Kingdom Metazoa
Unable to open file!