<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 MDP07063

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMKTIMAYSVNISVEAPIENQIQEITYDGQEIYQAPLTLSENLAKIAQKIDFSKTNGEEVKKEQLEGNEKNEEDTKDPASFQSSLWPWDSVRNKLRNALTEVCVLADVLAIAKERNYMVLDPTSHESADVKPMIQVYARKKALAGAASVLMMGTERLRNCQAELARTRSTPDFHIELLRLRQNWRLKKVSNSIIGDLSYRTAGSKYTQTGMFEVTKAEEEEKSNNSPPASPNTGSMSGQSHGPSNSKASALRVTIPSELQGVAYIEVLCQKDQEDLCSANISLLNSSANNSNTDMHWQQKLEAAQNVLFCKELFSQLAREAVHLRAPIPHMVVGNQIMATVLPGIQLIIGLCHSTGNDKKPTVPPPHKTDHDHVLEHSLHQLLREVHYNNSNHPFPHPASGPLGPSKRRYVAGPTAADRYELLEMTKSQTLLEQIIQQAQHFFMRLRTEYVLDTIAKEVKDPLIVSHWNALNSPTQSCVKINILTHGYDSVCRTSMVVHVGEKSLKCVCRDGRVMHMSYEPQELRDLIFCQIYQHQISAVQALAKCMGWQFLANSSHLGLGSVEPLGNASSCILASPIGDRMIAVRCEPQTGVQVAIAHSPRKDFFPGQLVRERKWENLGGSFKEVRWDKMEGKNFLNKMELLMASLTSS
Length649
PositionHead
OrganismAtta cephalotes (Leafcutter ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Atta.
Aromaticity0.06
Grand average of hydropathy-0.393
Instability index44.94
Isoelectric point7.09
Molecular weight72545.02
Publications
PubMed=21347285

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
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP07063
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     156.49|      43|     166|     389|     459|       1
---------------------------------------------------------------------------
  355-  384 (45.02/15.52)	..............GNDKKPTVPPPHKTDHDHVLEHSLHQLLRE
  389-  432 (72.55/92.74)	NSNHpFPHPASGPLGPSKRRYVAGPTAADRYELLEMTKSQTLLE
  553-  580 (38.92/14.20)	NSSH.LGLGSVEPLGNASSCILASPI.GDR..............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.47|      36|      43|      76|     115|       2
---------------------------------------------------------------------------
   76-  115 (54.71/40.07)	DPASFQSS.LWPWDSVRNKlRNALTEVcvlADVLAIAKE..RN
  120-  158 (53.76/28.43)	DPTSHESAdVKPMIQVYAR.KKALAGA...ASVLMMGTErlRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.50|      25|      39|     194|     218|       4
---------------------------------------------------------------------------
  194-  218 (42.16/30.02)	GDLSYRTAGSKYTQTGMFEVTKAEE
  233-  257 (42.34/30.19)	GSMSGQSHGPSNSKASALRVTIPSE
---------------------------------------------------------------------------




































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 MDP07063 with Med17 domain of Kingdom Metazoa
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