<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 MDP01663

Description Mediator of RNA polymerase II transcription subunit 17 (Fragment)
SequenceGVVKFQPSLWPWDSVRNNLRSALTEMCVLYDVLSIVKDKKFMTLDPVVQDPLPPKQNPQFLQLISKKKSLAGAAQILLKGAERLSKSVAENQENKRQRDFNSELLRLRQHWKLRKVGDKILGDLSYRSAGSLFLHHGTFEVIKNTDIDLDKKIPEDYCPLDVQIPSDLEGSAYIKVSIQKQAPDIGDLGTVNLFKRPMPKSKPGSPHWQTKLETAQNVLLCKEIFAQLSREAVQIKSQIPHIVVKNQIISQPFPGLQLSISLCHSSNDKKSQKSASEKQNAEDHLYVLEHNLHQLIRECHKQTLSSTVMPHPASAPFGHKRMRLAGPQAFDKNDISSLQSNEGLLEKIIKQAKHIFLRRRTARTIDSLASRIEDPQIQAHWSNINDVYESSVKVLITSQGYEQICKSIQLQLNIGVEQIRVVHRDGRVITLSHQEQELQDFLLSQMSQHQVHAVQQLAKVMGWHVLSFSNHVGLGPVESIGNASAITVASPNGDYAISVRNGPESGSKVMVQFPRSQCKDLPKGDVLQDNKWNHLRGPFKEVQWNKMEGRNFVYKMELLMAALTPC
Length566
PositionHead
OrganismCalypte anna (Anna's hummingbird) (Archilochus anna)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Caprimulgimorphae> Apodiformes> Trochilidae> Calypte.
Aromaticity0.06
Grand average of hydropathy-0.433
Instability index52.35
Isoelectric point9.28
Molecular weight63912.70
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
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

>MDP01663
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     473.30|     155|     172|      75|     239|       1
---------------------------------------------------------------------------
   75-  236 (240.52/212.48)	QIL...LKGAErLSKSVAENQENKRQRDFNSELLRLRQH.WKLRKVGDKILGDLSYRSAGSLFLHHGTFEVIKNTDIDLDKkiPEDYCPLDVqipSDLEGSAYIKVSIQKQAPDI....GDLGTVNLFKRPMPKSKPgSPHW...QTKLETAQNVLL........CKEIFAQLSREAVQIK
  247-  420 (232.78/172.46)	QIIsqpFPGLQ.LSISLCHSSNDKKSQKSASEKQNAEDHlYVLEHNLHQLIRECHKQTLSSTVMPHPASAPFGHKRMRLAG..PQAFDKNDI...SSLQSNEGLLEKIIKQAKHIflrrRTARTIDSLASRIEDPQI.QAHWsniNDVYESSVKVLItsqgyeqiCKSIQLQLNIGVEQIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.40|      17|      17|      28|      44|       2
---------------------------------------------------------------------------
   28-   44 (27.49/16.79)	VLYDVLSIVKDKKFMTL
   47-   63 (30.91/19.77)	VVQDPLPPKQNPQFLQL
---------------------------------------------------------------------------




































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 MDP01663 with Med17 domain of Kingdom Metazoa
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