<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 MDP27129

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLLYTVNRRSSSKFFSNQECLYNGQSLCSLSSRNIVAFTTMTELDDSSGKTRGCHVYVADLNMPWHAHKVLSNKHNITALEWDLPGDKLVMADTAGNVQLWMFKDHILNDWVLIGSAYFPGEHILGAAWFHNGKKTGLVTEKKDSIHYSEKFNHLLFAPSVRQFGGRAAEGVLVVSTTGMVGAIMITKDLQNPICYSTESLGNTRHRITAVDLCYGKNGHFLVAVSSGSICLPIRCFRVLVRKNDDKCTITSQALPSFFLQDGAPKDNSCTVVTHLKFVVREDADSLVIAANSESGGFVEVWELREKSQPVHKLFQPKTLEPFKTVVWQYQSQYRCQSPVTAIATTKLSIVTTLPPPSYVIIALADSSVHCLNRLDCLKEVAFSSLNTSWRPDEPSNKYFKNSVSIAHMDLSWLGCVLLACDTQGNMYLYKLLPDGTTGTSMSLNYACTLLEYCLVTGLDWLDILLCLRSSMIEALCERLDVSFNRQLQSTQQYHYILFLSIKTSLYRMLVTGQNKAADLSSLLMIHSVATAFKSLLRPSDLISHDKGPAESLAAVITDVIIDVDKVLLHLDPKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRMQVKTGGYELLKDHKALNTVRELLVIIRIWGLLRPSCLPVFLRSADNLDVLALLFCLLSKLVQPNGDTQQQVDDGLIDECCLLPNQIMIPQLHQGNSITAIVSPILFYQNLPLQLEYGVEPEQLVFTPEMNPVEGCMHSGQIVDTIRHLYLGRQPLLVKQCTRCGGKAQVQNMTRTAAIRAWDQRWTRACRCGGIWRIHKASQ
Length812
PositionTail
OrganismAcromyrmex echinatior (Panamanian leafcutter ant) (Acromyrmex octospinosus echinatior)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Acromyrmex.
Aromaticity0.08
Grand average of hydropathy0.006
Instability index48.36
Isoelectric point7.27
Molecular weight90862.07
Publications
PubMed=21719571

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

>MDP27129
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.66|      25|      27|     749|     775|       1
---------------------------------------------------------------------------
  750-  775 (41.58/35.38)	QIVDTIRHLYL.GRQPLLVKQCtRCGG
  778-  803 (44.08/26.54)	QVQNMTRTAAIrAWDQRWTRAC.RCGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     173.96|      50|     196|      24|     107|       2
---------------------------------------------------------------------------
   57-  106 (92.36/93.72)	VYVADLNMPWH....AHKVLSNKHNITALEWDLPGDKLVMADTAGNVQLW.MFKD
  382-  436 (81.61/31.42)	VAFSSLNTSWRpdepSNKYFKNSVSIAHMDLSWLGCVLLACDTQGNMYLYkLLPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.75|      19|      29|     502|     520|       3
---------------------------------------------------------------------------
  502-  520 (32.14/20.15)	SIKT...SLYRM..LVTGQNKAAD
  529-  552 (22.61/12.14)	SVATafkSLLRPsdLISHDKGPAE
---------------------------------------------------------------------------




































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 MDP27129 with Med16 domain of Kingdom Metazoa
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