<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 MDP05520

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMVVLRGGVGPEEPYPRIEDCLPPLEDSPSKXFSPSKRKQYFINKAIRNSDLTPRAKGRKSLQRLENTRYLMTLLEXDGCGSEEGELVHSAAPSIFTEACNNETYVEIWNDFMNRSGEEQERVLLYLEEEAGKKHRRKLPVKSEAKWKDLTHMVHIIDTEHPWDVYSVNSGHAEVITCLEWDQSGSRLLSADADGHIKCWSMTDHLANSWENTVGSMVEGDPVVALSWLHNGVKLALHVEKSGASNFGEKFSRVKFSPSLTLFGGKPMEGWIAVTISGLVTVSLLKPNGQVLTSTESLCRLRCRVALADVAFTGGGNIVVATSDGSSASPVQFYKVCVSVVNEKCKIDTEILPSLFMRCTTDPARKDKYPAITHLKFLARDMSEQVLLCASNQNSSIVECWSLRKEGLPVNNIFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVANDTKFFPGLGLALAFHDGSVHIVHRLSLQMMAVFYGSSSQRPVXEQAIKRQRTAGPLVHFKAMQLSWTSLALAGIDSHGKLSMLRISPSMGHVLDMNMSLRHLLFLLEYCMVTGYDWWDILLHVQPNMVQNLVEKLHEEYMRQNAALQQVLSTRIVAMKASLCKLSSSTIARVCDYHAKLFLIAISCTLKSLLRPXVLNTPDKSPGDRLTEICSKITDIDIDKVMINLKTEEFVLEMNTXQSLQQLIQWVGDFVLYLLASLPNQGSPVRPGHSFLRDGASLGMFRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWLCCREENHITEPDXTLIDECCLLPSQLLIPSIDWLPINXGIISKLQNKQLVRLQFGKAPGLVGHTVSSQFDAFVRAPGQPKIDHLRRLHLGAYPTEECKSCTRCGCVTMLKSPNKVTAVKQWEQRWIKNCLCGGLWRRMPLSYS
Length932
PositionTail
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.07
Grand average of hydropathy-0.095
Instability index50.30
Isoelectric point8.38
Molecular weight103558.01
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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP05520
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.66|      45|     135|     555|     609|       3
---------------------------------------------------------------------------
  555-  609 (60.28/62.88)	VLDMNmslRHLLFLLEYcmvTGyDWWDILLHVQPNmvQ.NLVEKLHeEYMRQNAAL
  696-  743 (72.38/41.34)	VLEMN.txQSLQQLIQW...VG.DFVLYLLASLPN..QgSPVRPGH.SFLRDGASL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.42|      42|     200|     178|     220|       4
---------------------------------------------------------------------------
  178-  220 (74.39/55.63)	LEWDQSGSRLLSADADGH..IKCWSM.TDHL.ANSWENTVGSMVeGD
  377-  422 (61.03/40.36)	LARDMSEQVLLCASNQNSsiVECWSLrKEGLpVNNIFQQISPVV.GD
---------------------------------------------------------------------------




































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 MDP05520 with Med16 domain of Kingdom Metazoa
Unable to open file!