<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 MDP05042

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMFARSPVKENELLDLLLEARASSSVTWDPLLPLYVDGLCKVGRVKSSSALASLLKHSSIVDASGSGEVEGEAQGSPSKSKKQKPSTLMTDIKVIQDVMVFISTGSIPKTIIEAADIYSATVDWILAVVAWHNYGVDTSQQTGGLMGSPDAASLFESLGILLAALSGTSKGLEVLSSDFNQALKAKLGQALSSYLPLCIDVSLPLRHRLEELQKVFNLYPGQPSKALHGPGIDGVNVNALQFESSVMDGPVVNTRAGLYVYINSMVVGRPLVDDTILINYLTNRYQGHNDVLIEEIITAAFDVLSNGVYRNESGRTMLLFRSFLVNKLPAFFAAISAASMVPISMEMCISHALSRLDPNAFPSFSQMFSMQGSSVLSDARQEFLFACASHKLIRESSIEQLLGENPMQTLPGGGPYVKDDLVSQINNNHERTEQLIGEIESMEGNAGAIVGAVVDVMHNLCHERETMTLKNICNSLSRRPQTLDVMLLFRTTKQVLQPLCAILDSWKWDEDQGENQPVYDEFGSILLLVLAFKYRYDLSPPDMGISNNDSFLLKLLDRGACSQKLSDLSEKQNNDLSAWIGALFIAEGISEETMSSCSPHEFYMLVTTLFDQSLGACESGKLDFDTLKGGFEYLLEPFLLPSLVVALTWLGNHIWESETDPAIPIKTLHSLVKPSSISGEAQAIHKTVLNITGCPLEEQLKNVQTRNQSRTDIKPILDGLEPYISFRRVGSCRRSELDTWTSHSAGGLIASIRTTLQGLVLWSANPGISMAPHAYTHRQVLAGIRMLGATRVLGAIIDEVKQQTEAGNGHVALDIATTMVCAPMTESFAVDQNNYHPVDTSKEALPRCAILTLRDALALQHENVPKISESDPLRAEVVVRLARRVNMLMAPPSQVSNIDVSNIIQNMHLGVEGQEDRMDLEPSAADVERSTVNEDDPDNINQMLDKAAADAAAAGMDGGIGVGQDMGLDSGAGMDAIDDVLNAADMAVGNPEFLDLDMEGMF
Length1001
PositionTail
OrganismPenicillium nordicum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Penicillium.
Aromaticity0.06
Grand average of hydropathy-0.026
Instability index43.37
Isoelectric point4.78
Molecular weight108793.75
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

>MDP05042
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.79|      29|      31|     400|     430|       1
---------------------------------------------------------------------------
  400-  430 (47.24/37.37)	LLGEnpMQTLPGGGPYVKDDLVSQINN.NHER
  434-  463 (46.55/29.40)	LIGE..IESMEGNAGAIVGAVVDVMHNlCHER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.13|      37|      98|      34|      70|       2
---------------------------------------------------------------------------
   34-   70 (63.80/39.18)	Y.VDGLCKVGRVKSSSALASLLKHSSIVDASGSGEVEG
  133-  170 (57.33/34.45)	YgVDTSQQTGGLMGSPDAASLFESLGILLAALSGTSKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.93|      49|     620|      71|     119|       3
---------------------------------------------------------------------------
   71-  119 (83.36/60.33)	EAQ..........GSPSKSK.K..QKPSTLMTDIKVIQD....VMVFISTGSIPKTIIEAADIYSA
  679-  744 (66.57/46.67)	EAQaihktvlnitGCPLEEQlKnvQTRNQSRTDIKPILDglepYISFRRVGSCRRSELDTWTSHSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      97.63|      20|     300|     498|     519|       5
---------------------------------------------------------------------------
  498-  517 (38.01/19.58)	LCAILDSWKWDEDQGENQPV
  792-  811 (27.79/11.31)	LGAIIDEVKQQTEAGNGHVA
  819-  837 (31.82/16.56)	VCAPM.TESFAVDQNNYHPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     183.53|      64|     227|     299|     391|       6
---------------------------------------------------------------------------
  300-  371 (94.42/90.04)	FDVLSNGVYRN.....ESGRtmLLFRSF...LVNKLPAFFaaisAASMVpISMEMCISHAL.SRLDPnAFP.....SFSQMFSMQG
  601-  678 (89.11/66.55)	FYMLVTTLFDQslgacESGK..LDFDTLkggFEYLLEPFL....LPSLV.VALTWLGNHIWeSETDP.AIPiktlhSLVKPSSISG
---------------------------------------------------------------------------




































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 MDP05042 with Med5 domain of Kingdom Fungi
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