<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 MDP19954

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDGNTRDPRGALRESTEYWSNFVARCISRRLDTDRFEEFVPLVYSQHPLAPIFIADLFLKPQPTNNVSLDPRMPLYIKVLSRLGYIDAPSILWTMCKYSSLHAQLRLSQNGDNKEDQTRCWRISSWAEEVMFYHVIKTVVEGSAFRDSRAALVLVKSICKWMNLFTSASTAFAADVLGEIQSSQVRDEMDVSRAAFIPLLLRLVETPSLVKVISKPAAKAVRKELSESLSGFLHTLQPSPGFVERLEIFRSETLARLDPLDNKNQAATSAAIDDLLENTVGLDNFVVPDIPISTTRAGLYVHLNASLVGRPLIDDNALLSYLHNRYQGQTQSSAIDLILASFDILANTVFRNEGQKDAHLLRSFLINKVPLLLCQLCSPQFSTTSSEFCITEALNQVDTSVFPTASLMFDESRSNNPYTESVREEFCTACALHGLVQREHVERILGETSMSYEPSLERYSKDKLVQDCLSDPEKIQGMVRELDKMDGNVGAVSQALVELMRQLCNNKETMSLKLLCGQLAQKPQSLDILLLFEKLPAILEPLCQLLDNWRYDDDQGEYQPIYEEFGAILLLVLAFAYRYNLTAADIGITSTDSCITKILNRAHMSRDMDELTEQEKEHMNGWVHGLFDSETGGLGDDLMSSCPPQDFYLFVASLFQNIVVAYTYGYLNDETLKSGIEYLVDTFLLPSLGPAIRFLADYLWVEQKEQKSIIKILQLILLPSSISGEASTMLSSVKNLIAKPLEHSLRTYQKQDPKNQDIEPLLRALKDSLPLSRRTGGAEHNELESWGSSSSSGLAGAVKHTVQGLVQWSMHHGINVMPTSYTHRQVIAACRIAGTSRVLRVMLEEIRHQSEAGSANIVYDVVAALICAPDVTNEPPGAGNLMDAAGNVAPTLQRRLKLREVLRLDAQDCRKLQKRDPALADIIVRLHRRVESHMVLPQPQAMLEASDMPLDLSGGAAGLGDAMAAAAGVQGDGISVDGVGLDMGLGGVSSDLGLGGPSGSVAGLDSTSDGELFGAIDTSMDMFNGWDGMDLGGN
Length1034
PositionTail
OrganismTolypocladium paradoxum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Ophiocordycipitaceae> Tolypocladium.
Aromaticity0.07
Grand average of hydropathy-0.106
Instability index43.19
Isoelectric point5.04
Molecular weight114125.86
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

>MDP19954
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.17|      33|      37|     958|     993|       1
---------------------------------------------------------------------------
  958-  991 (54.19/35.17)	GLGDAMAAAAGVQ..GDG...ISVDgVGLDMGLGGVSSD
  993- 1030 (52.98/35.71)	GLGGPSGSVAGLDstSDGelfGAID.TSMDMFNGWDGMD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.85|      11|      19|     510|     527|       2
---------------------------------------------------------------------------
  510-  527 (13.48/21.63)	MSLKLLCgqlaqkpQSLD
  537-  547 (20.37/10.28)	AILEPLC.......QLLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.68|      10|      19|     338|     349|       3
---------------------------------------------------------------------------
  338-  349 (12.29/12.74)	ILASFdiLANTV
  360-  369 (17.39/ 9.55)	LLRSF..LINKV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.93|      16|      19|     373|     388|       4
---------------------------------------------------------------------------
  373-  388 (30.80/20.77)	LCQLCSPQFSTTSSEF
  394-  409 (27.13/17.39)	LNQVDTSVFPTASLMF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     130.11|      31|      32|     664|     695|       5
---------------------------------------------------------------------------
  632-  661 (37.58/22.49)	.GGLGDDLMSSCPPQ..DFYLfVAS..LFQNIVVA
  664-  695 (49.30/36.68)	YGYLNDETLKSGIEYLvDTFL.LPS..LGPAIRFL
  698-  730 (43.24/27.04)	YLWVEQKEQKSIIKIL.QLIL.LPSsiSGEASTML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.95|      15|      19|     772|     786|       6
---------------------------------------------------------------------------
  772-  786 (27.70/16.93)	SRRTGGAEH..NELESW
  792-  808 (22.26/12.27)	SGLAGAVKHtvQGLVQW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.39|      24|     139|     456|     482|       7
---------------------------------------------------------------------------
  456-  482 (39.06/34.96)	LER..YSKDklvQDCLSDPEK..IQGMVREL
  599-  626 (36.33/24.03)	LNRahMSRD...MDELTEQEKehMNGWVHGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.78|      16|      38|     185|     200|       8
---------------------------------------------------------------------------
  185-  200 (27.28/17.73)	VRDEMDVSRAAFIPLL
  221-  236 (26.50/17.00)	VRKELSESLSGFLHTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.09|      21|     138|       2|      22|       9
---------------------------------------------------------------------------
    2-   22 (40.80/24.02)	DGNT.RDPRGA..LRESTEYWSNF
  141-  164 (29.29/15.44)	EGSAfRDSRAAlvLVKSICKWMNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.72|      12|      19|     291|     302|      10
---------------------------------------------------------------------------
  291-  302 (22.19/15.27)	PISTTRAGL.YVH
  311-  323 (17.54/10.45)	PLIDDNALLsYLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.54|      13|     162|     746|     758|      11
---------------------------------------------------------------------------
  746-  758 (25.66/16.70)	RTYQKQDPKNQDI
  910-  922 (22.88/14.10)	RKLQKRDPALADI
---------------------------------------------------------------------------




































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 MDP19954 with Med5 domain of Kingdom Fungi
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