<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 MDP26501

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMTELDDSSGKTRGCHVYVADLNMPWHAHKILSNKHNITALEWDLPGDKLVMADTAGNVQLWMFKDHILNDWVLIGSTYFPGEHILGAAWFHNGKKTGLVTEKKDNIHYSEKFNHLLFAPSVRQFGGRAAEGVLVVSTTGMVGAIMITKDLQNSICYSTESLGNTRHRITAVDLCYGKNGHFLVAVSSGSICLPIRCYRVLVRKNDDKCTITSQALPSFFLQDGAPKDNSCTIVTHLKFVVREDADSLVIAANGENGGFVEVWELREKSQPVHKLFQPKSLEPFKTVWQYQSQYRCQSPVTAIATTKLSIVTTLPPPSYVIIALADSSVHCLNRLDCLKEVAFSSLNTGWRQDEPSNKYFKSSVSIAHMDLSWLGCVLLACDTHGNLYLYKLLPDGTAGTSMSMSYACTLLEYCLVTGLDWLDILLCLRSSMIEALCERLDVSFNRQSQSTQQFHYIQFLCIKTSLYRMLGTISGQNKAADLSSLLMIHSVATAFKSLLRPSDLISYDKGPAENLTAVITDVITDNTDNIDKVLSIYLPDPKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRMQVKTGGYELLKDHKALNTVRELLVIIRIWGLLRPSCLPVFLRSTDNLDVLALLFCLLSKLVQPNGDPQQQQQVDDGLIEKLNNSHDVESKKNNRENFLKKDLPPLVIHKQISGEDIENIGVVVEKDEEAHLDIASNYVEKSPLQDYLKLVTVLSPDEVKSPETPMSPRELFFIDLIREAEKAENAKSLETKPHFFSSETTEDMKNVENVKEEKNIRDVKNEKDTSKHECCLLPNQIMIPQLHQGNSITAIVSPILFSQNLPLQLEYGVEPEQLVFTPEMNPVEGCMHSGQIVDTIRHLYLGKQPLLVKQCTRCGGKAQVQNMTRTAAIRAWDQRWTRACRCGGIWRIHKAC
Length927
PositionTail
OrganismCamponotus floridanus (Florida carpenter ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Formicinae> Camponotus.
Aromaticity0.07
Grand average of hydropathy-0.175
Instability index48.65
Isoelectric point6.18
Molecular weight104089.48
Publications
PubMed=20798317

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

>MDP26501
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.83|      18|      22|     205|     224|       1
---------------------------------------------------------------------------
  205-  224 (27.32/23.91)	DDKCTITSQAlpSFFLQDGA
  227-  244 (31.51/19.82)	DNSCTIVTHL..KFVVREDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.88|      15|      20|     746|     765|       2
---------------------------------------------------------------------------
  746-  765 (18.39/21.46)	LFFidlirEAEKAENAKSLE
  769-  783 (26.49/15.87)	HFF.....SSETTEDMKNVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.30|      24|      26|     865|     890|       3
---------------------------------------------------------------------------
  866-  890 (38.79/36.09)	QIVDTIRHLYL.GKQPLLVKQCtRCG
  894-  918 (41.51/26.65)	QVQNMTRTAAIrAWDQRWTRAC.RCG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.89|      14|      20|     820|     839|       4
---------------------------------------------------------------------------
  820-  839 (18.84/21.77)	GnsitaiVSP..ILFSQNL.PLQ
  843-  859 (17.04/ 7.06)	G......VEPeqLVFTPEMnPVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.39|      17|      21|     407|     425|       6
---------------------------------------------------------------------------
  416-  432 (30.13/14.51)	TGLDWLDILLCLRSSMI
  621-  637 (27.26/12.50)	DNLDVLALLFCLLSKLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.88|      14|      26|     258|     271|       7
---------------------------------------------------------------------------
  258-  271 (26.06/17.13)	FVEVWELRE..KSQ.PV
  283-  299 (19.82/11.24)	FKTVWQYQSqyRCQsPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.60|      20|      26|     340|     359|       8
---------------------------------------------------------------------------
  340-  359 (36.63/21.98)	VAFSSLNTGW......RQDEPSNKYF
  363-  388 (30.97/17.52)	VSIAHMDLSWlgcvllACDTHGNLYL
---------------------------------------------------------------------------




































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 MDP26501 with Med16 domain of Kingdom Metazoa
Unable to open file!