<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 MDP04970

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMHNAVLDVVLTCLAEKVPTCQAYARIVEAARAKGGLAVLQAELTDVLVTMAFASKPMPPLLLDYLDALCMKCAYDTDVTAFEEGRVLLVLLRKLPDAAQDVDQATVNMLSQLVLQAAGDPTMSDTVSLSYFIEGFDNDFLAFWRATLHLVRDADGAGARLFTRLVAQAARDGWPTLDESPALENIQEEIQQLAASVDAMHTNRPTSDGDATRHAVATLQRGLSSTMVDDLFDETNVSVSSPIQPLWGTRAYLAYATSLHVAWQQSQGAQTRRPVLPVPCSPEPEMFLLAHTLANGDMDWTQKCLAVQGVFQAHLHHAAEPASDLCCAFLLELFVACIHTAMEALQHEASRRNARWWRAVVSGLLPPLSVFLMANVPATNESTLTWHEVMHALFALCQSVQTWSDMDAPLTEPSPSVMSQLPGIWEAWMMSFTPSSATTTPPWRGVHADDVMPLASSHVQTYMSHVQSCLTDKPAQLGPLFEQALHDPSLQAVLMMETRRILQQWSESHSADMSRVAVICHAIEEHSPELMDILSLYMKPRVVCEALEIVLSHMHDSLWQNASDLETVTQVIILLEGVSLLSTPCMSYVGEARVFYSMPTPLLDVPSLPNPMHDLLVRWCQAMTSAHGISDTLLSASPPWTLYRLAPTLVSHLLDGYRHGYFDKQALASALSYFTQAPLRYALPNALHWLITYTQQTMARAQYAPKMSSDVSLCLELLHMLTRAEGCTTLIRSMISAPLRAMLQHERIAAIASQTGLQVPTWSESLPTNWNSYKPTKYSLAMMLRTACDLPPSSTLPQTIETLCVAPKRPRELASQLFSAALCTASDDATKSKLLAATFALVRFDPLCALPLSVVRMALLHWDMSLATPEQMRHVGRILVLSAALAKHLPGGPDGVQGLIDDLAAFSIEPLVHVLRLEVV
Length919
PositionTail
OrganismMalassezia pachydermatis
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Malasseziomycetes> Malasseziales> Malasseziaceae> Malassezia.
Aromaticity0.07
Grand average of hydropathy0.129
Instability index54.39
Isoelectric point5.38
Molecular weight101100.58
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

>MDP04970
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.00|      27|      54|     364|     391|       1
---------------------------------------------------------------------------
  364-  391 (44.89/27.40)	LPPL.SVFLMANVPATNESTLTWHEVmHA
  420-  447 (48.12/25.12)	LPGIwEAWMMSFTPSSATTTPPWRGV.HA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     302.94|      87|     167|     596|     688|       2
---------------------------------------------------------------------------
  596-  672 (109.46/59.29)	.........................SMPTpLLDVPSLPNPMHD..LLVRWCQAMTSAHGISDTLLS.ASPPWTLY....RLAPTLVSHllDGYRHGYFDKQALASALSY
  676-  772 (122.50/62.10)	APLRYALPNALHW........lityTQQT.MARAQYAPKMSSDvsLCLELLHMLTRAEGCTTLIRSmISAPLRAMlqheRIA.AIASQ..TGLQVPTWSESLPTNWNSY
  773-  845 (70.98/28.05)	KPTKYSLAMMLRTacdlppsstlpqTIET.LCVAPKRPRELAS..QLFSAALCTASDDATKSKLLA.AT..FALV....RFDP..........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     151.72|      48|      51|      81|     128|       3
---------------------------------------------------------------------------
   81-  128 (79.42/43.69)	FEEG..RVLLVLLRKLPDAAQDVDQATVNMLSQLVLQAAGD..PTMSDTVSL
  131-  182 (72.30/39.16)	FIEGfdNDFLAFWRATLHLVRDADGAGARLFTRLVAQAARDgwPTLDESPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.45|      18|      21|     517|     536|       8
---------------------------------------------------------------------------
  517-  536 (28.82/19.32)	VICHAIEEHSPELMDilSLY
  541-  558 (32.63/16.56)	VVCEALEIVLSHMHD..SLW
---------------------------------------------------------------------------




































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 MDP04970 with Med5 domain of Kingdom Fungi
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