<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 MDP04387

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMGRVRTSTVLTSLLKYSSIHDKPQLPSSEGKDGSKCYTLMTDIRVIQDAMLSVSTGSTPKTNAEAIAIFFSIIDWIHAVVSWHNSHFDPGQHSSGMMSSPDVVSLFESLGILLAALSGTGKGLEVLSADSHEGLKVKLGQALSAYLPLCVEVSLPLRNRLDGLQKEFNLYGERAPKSLDVPMMENMNVNALQFEASVMDGPVINSRAGLYVFINAMLVGRPLVDDGMLINYLANRYGGHYEALIEEILTAAFDVLSNGMYRNESSRTMFVFRSFLVNKLPAFFAAMLASTMVSIPMEMCISHALSRLDPNTFPSFSQMFEMQGNTVLSDVRQEFLFACASHKLIPESSIERLLGENPMQTLPVGYNKDELVSQINANPERAEQLINEIESMEGNAGAIIGAITEVMHNLCSQKETMTLKNICNSLSRRPQALDVVLIFRNPKQVLQPLCALLDSWHWDEDQGENQPVYDEFGSILLLVLAFKYRFDLRPADLGISSNDSFVLRLLERGSCSQKLDALDEKQNKNLGSWIAALFIAEGISEETMSACSPQEFYLLVATLFSQSLEACETGKLEFDTLKGGFEYLLEPFLLPSLIFALTWLGNHIWETELDPSIPLKALHSLVNPSSISGEAREIHRTVLNITARTLEEQLKDVRTRHPSRTDIKPILDSLEPCLSFQRVGSSHRSELESWTTHSGGGLLGSIRSTFQSLVLWSTNPEVSMAPPPYTHRQLIAGVRMLGASRVFPALIEELKLQTEAGNGALALDLAATLICAPMAETFSVEQNSHQPVDPNKEALPRCGILTLRDVLALQHENVPKISEKDPLRAEVIVRLYRRVNALLAPPSQVPTLDVNNIIQNMQLGAVGVGVGVDVGAGQMELDAAGAADHGVEPDDAENIHRMIDNAAAAAGLDSSGTGLDTSIDDVLNAADMAVGNPEFLDLDMEGMF
Length943
PositionTail
OrganismAspergillus udagawae
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus.
Aromaticity0.06
Grand average of hydropathy-0.008
Instability index44.25
Isoelectric point4.87
Molecular weight103317.93
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

>MDP04387
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     268.67|      96|      99|     696|     794|       2
---------------------------------------------------------------------------
  696-  757 (79.58/44.76)	........................................................GLLGSIRSTFQSLVLWSTN.PEVSmAPPPYTHRQLIAGVRMLGASRVFPALIEELKLQTEAGN
  758-  855 (132.36/80.38)	GALALDLAATlICAPMAETFSVEQNSHqPVDP.NKEAL...............prcGIL.TLRDV...LALQHENvPKIS.EKDPLRAEVIVRLYRRVNALLAPPSQVPTLDVNNIIQN
  859-  933 (56.73/27.21)	GAVGVGVGVD.VGAGQMELDAAGAADH.GVEPdDAENIhrmidnaaaaagldssgtGLDTSIDDVLNAADMAVGN.PE.........................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.35|      27|     103|     561|     591|       3
---------------------------------------------------------------------------
  333-  362 (40.35/19.92)	EFLFACASHKL...IPESSIERLLgeNPMqTLP
  561-  590 (42.99/35.14)	QSLEACETGKLefdTLKGGFEYLL..EPF.LLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.12|      28|     207|     161|     190|       5
---------------------------------------------------------------------------
  161-  190 (45.10/30.82)	DGLQKEFNLYGERAPKSLDvpMMENMNVNA
  368-  395 (47.02/25.99)	DELVSQINANPERAEQLIN..EIESMEGNA
---------------------------------------------------------------------------




































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 MDP04387 with Med5 domain of Kingdom Fungi
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