<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 MDP08772

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLLYTVNRRSSSKFFSNQECLYNGQSLCSLSSRNIVAFTTMTELDDSNGKTRGCHVYVADLNMPWHTHKVLSNKHNITALEWDLPGDKLVMADTAGNVQLWMLKDHILNDWVLIGSTYFPGEHILGAAWFHNGKKTGLVTEKKDSIHYSEKFNHLLFAPSVRQFGGRAAEGVLVVSTTGMVGAIMITKDLQNPICYSTESLGNTRHRITAVDLCYGKNGHFLVAVSSGSICLPIRCFRVLVRKNDDKCTITSQALPSFFLQDGAPKDNSCTVVTHLKFVVREDADSLVIAANNESGGFVEVWELREKSQPVHKLFQPKTLEPFKTVIYDYFILVWQYQSQYRCQSPVTAIATTKLSIVTTLPPPSYVIIALADSSVHCLNRLDCLKEVAFSSLNTSWRPDEPSNKYFKNSVSIAHMDLSWLGCVLLACDTQGNMYLYKLLPDGTTGTSMSLSYACTLLEYCLVTGLDWLDILLCLRSSMIEALCERLDVSFNRQLQSTQQYHYIQFLSIKTSLYRMLITGQNKAADLSSLLMIHSVATAFKSLLRPSDLISHDKGPAESLATVITDVITDVDKVLLHLDPKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRMQVKTGGYELLKDHKALNTVRELLVIIRIWGLLRPSCLPVFLRSADNLDVLALLFCLLSKLVQPNGDTQQQVDDGLIEIQRTHKKKSKIHRIYEDIMINKLAIKHKDSLILKENRLHEKNCTTQQSRLKRYKHLLLPWSTLSVFVIYWFVLCPLIWAICYKFAYWPSYWSFLFWTVAFLIWIVIIYGLIIFWRRFQVEQSLEINAISKYGSDKVRRPLSVHQISSEDSEFLETEKRNDSHDLESKSDRENLKRDLAPLVIHKQISGENIEDTVGVVCVEENEKTRLSIASDYAQKSPLQDYLKLVTVSPSDEVKSPKTPMSPRDLFFIDLIREAERVEKSLKTRTHFFPSEITAENDGTEIVKNITNEKDMKDVEHRKDIKDNECCLLPNQIMIPQLHQGNSITAIISPILFYQNLPLQLEYGVEPEQLVFTPEMNPVEGCMHSGQIVDTIRHLYLGKQPLLVKQCTRCGGKAQVQNMTRTAAIRAWDQRWTRACRCGGIWRIHKASQ
Length1124
PositionTail
OrganismCyphomyrmex costatus
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Cyphomyrmex.
Aromaticity0.09
Grand average of hydropathy-0.132
Instability index48.24
Isoelectric point7.83
Molecular weight127961.28
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

>MDP08772
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.75|      14|      16|     781|     796|       1
---------------------------------------------------------------------------
  777-  790 (32.45/20.32)	KFAYW..PSYWSFLFW
  793-  808 (22.30/ 6.59)	AFLIWivIIYGLIIFW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.16|      39|      90|     366|     406|       3
---------------------------------------------------------------------------
  366-  406 (63.08/45.78)	SYVIIALADSSVHCLNRLD...CLKEVAFSSLNTswRPDEPSNK
  453-  494 (66.08/40.55)	SYACTLLEYCLVTGLDWLDillCLRSSMIEALCE..RLDVSFNR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.30|      24|      26|    1061|    1086|       5
---------------------------------------------------------------------------
 1062- 1086 (38.79/28.71)	QIVDTIRHLYL.GKQPLLVKQCtRCG
 1090- 1114 (41.51/21.16)	QVQNMTRTAAIrAWDQRWTRAC.RCG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.42|      33|     198|      75|     107|       7
---------------------------------------------------------------------------
   75-  107 (61.27/39.57)	KHN....ITALEWDL..PGDKLVMA...DTAGNVQLWMLKDH
  267-  308 (41.14/24.28)	KDNsctvVTHLKFVVreDADSLVIAannESGGFVEVWELREK
---------------------------------------------------------------------------




































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 MDP08772 with Med16 domain of Kingdom Metazoa
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