<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 MDP30867

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLAYVCEWERWPKSTHCPSVPLACAWSCRNLIAFTTDLRNDDQDLTRMIHILDTEHPWDVHSVNSEHSEAITCLEWDQSGSRLLSADADGQIKCWSMADHLANSWESSVGSLVEGDPIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSASPVQFYKVCVSVVSEKCRIDTEILPSLFMRCTTDLNRKDKFPAITHLKFLARDMSEQVLLCASSQTSSIVECWSLRKEGLPVNNVFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFHDGSVHIVHRLSLQSMAVFYSSAAPRSADEPAIKRPRTTGPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSMGHALDVSLALRHLLFLLEYCMVTGYDWWDTLLHVQPAMVQSLVERLHEEYTRQNAALQQVLSTRILAMKASLCKLSPCTVARVCDYHAKLFLVAVSSTLKSLLRPHFLNTPDKSPGDRLTEVCAKITDADIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGSPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGPTSEPDEALVDECCLLPSQLLIPSLDWLPVSDGLVSRLQPKQPLRLQFGKAPALPACATVQPDGLSRAPGQPKIDHLRRLHLGAYPTEECKACTRCGCVTMLRSPNKTTAVKQWEQRWIKNCLCGGLWRRVPLSYP
Length828
PositionTail
OrganismFelis catus (Cat) (Felis silvestris catus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Feliformia> Felidae> Felinae> Felis.
Aromaticity0.07
Grand average of hydropathy0.024
Instability index50.65
Isoelectric point7.70
Molecular weight91613.23
Publications
PubMed=17975172

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:Ensembl

GO - Biological Function
catalytic activity	GO:0003824	IEA:InterPro
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP30867
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     147.68|      48|     188|      71|     119|       1
---------------------------------------------------------------------------
   71-  119 (85.17/62.01)	AITCLEW...DQSGSRLL..SADADGQIKCWSM.ADHL.ANSWESSVGSLVeGD..PI
  267-  323 (62.52/40.09)	AITHLKFlarDMSEQVLLcaSSQTSSIVECWSLrKEGLpVNNVFQQISPVV.GDkqPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     272.33|      83|     369|     345|     433|       3
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  345-  433 (122.21/94.79)	PKLPISLT...NTDLKVASDTQfyPGlGLALAFHDGSVHIVHRLSLQSMAVFYSSAAPRSADEPAIKRPRTTGpAVhfKAMQLSWTSLALVG
  732-  817 (150.12/91.85)	PKQPLRLQfgkAPALPACATVQ..PD.GLSRAPGQPKIDHLRRLHLGAYPTEECKACTRCGCVTMLRSPNKTT.AV..KQWEQRWIKNCLCG
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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 MDP30867 with Med16 domain of Kingdom Metazoa
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