<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 MDP07139

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDGRVVRGVQRAALEKWSEFIARSLAHRIDPDKFESYIPFLQVKHPLPPVAVADLFLRPQPHNHESLDPRVPRYLQVLSDLNYIDTPSILKALYKYSTSRTHSRDAAQPANGETQRSNIPRWGSSYAAEEVMFYRLTKSVAQGTAIQNTGTGLEIANIMAKWIALFTDAATAFTVDVMGQLHNSQVREEMESARAAFVALLLGVCENQVVLKTLSKPEAQDTRKALSESLANFVPTIMQSAGPIATRLDMFRTSTLAGFEPVDEQKNKSNAEIEDLFDSTVALENFVISELPIVNSRAGLYIYLNAALVGRPLIDDLAIFNYLNNRYQGDVQSTTVDLILASFDVLANAASRNEGNQAAHLLRSFLMNKLPILIESLSKHMYGPVNAEYCITEALGRVDTTTFPTLSSMFDETRSNNPFTDSVREEFCWACCLHGLVRESSIETLLGETPYQSLPTGGRYVKENLVAECLADPERMQALIGELDNKDGNAGAVCQALTEVMGQLCRNKETMSLKLLCSQLAQKPLSLDVMLMFEKPATILHPLCDLLDNWKYDEDQGEYQPVYEEFGSILLLVMAFAYRYGLSASDMGVTSSDSFVARLLGQGHQSRPFDELSDQEKGHLNGWIHGLFDSEAGGLGDELMSSCPPQDFYLLVSTLFQNIVLAFSTGHLAEESLRGGIEYLVDTFLLPSLVVAITYLANSLWVERSDCQKAIVRVLNSVLAPTSISNEAQAMLTSVMNIVAKPLEHSLRAYQRSDPKSQEVEPLLKAIKDSIPLSRRTGAADHTELDAWSLGGFSNSIRQTLQQLVQWSIHPTMDRMPPAYTHRQMLVALKLLGAKRLLQLLYEDIRQQTDTGSGSIIYDVATAIVCAPDVVNTPSNPVNFLDNSGNMPAPVQRKLTLREVLKSDAEDCKRLQKTDMNLAEIVVRLHRKVESQMAVSQAQAIQADTMLQNDLGLGLDTGAGSLDDAMAAAAANVAQGDGMSVDNVSLDLGLGGVGGDMGLGGSSNNGGGSLDLGTDDIFSGLGAGDDFQWDNMDLS
Length1035
PositionTail
OrganismColletotrichum incanum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Glomerellales> Glomerellaceae> Colletotrichum> Colletotrichum spaethianum species complex.
Aromaticity0.07
Grand average of hydropathy-0.123
Instability index41.78
Isoelectric point4.85
Molecular weight113463.46
Publications
PubMed=27189990

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

>MDP07139
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.25|      16|      21|     985|    1004|       1
---------------------------------------------------------------------------
  985- 1000 (30.84/20.98)	SLDLGLGGVGGDMGLG
 1009- 1024 (27.41/ 9.23)	SLDLGTDDIFSGLGAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.43|      15|      45|      60|      74|       2
---------------------------------------------------------------------------
   60-   74 (30.52/18.00)	QPHNHESLDPRVPRY
  108-  122 (29.91/17.52)	QPANGETQRSNIPRW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.36|      35|      45|     602|     642|       3
---------------------------------------------------------------------------
  602-  642 (57.24/42.07)	QGHQ...SRPFDELSDQ.EKGHLNgwihglFDSEAGG...LGDE.LMSS
  646-  688 (41.12/19.27)	QDFYllvSTLFQNIVLAfSTGHLA......EESLRGGieyLVDTfLLPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.47|      15|      16|     744|     758|       4
---------------------------------------------------------------------------
  744-  758 (27.05/17.31)	EHSLRAYQRSDPKSQ
  761-  775 (24.42/14.90)	EPLLKAIKDSIPLSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.34|      14|      16|     692|     705|       5
---------------------------------------------------------------------------
  692-  705 (24.24/15.11)	AITYLANSLWVERS
  710-  723 (22.10/13.16)	AIVRVLNSVLAPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      83.03|      23|      23|     464|     486|       7
---------------------------------------------------------------------------
  431-  452 (16.34/ 6.68)	.....CclhgLVRESSIETLLGET.PYQ
  464-  486 (40.20/27.89)	NLVAEC....LADPERMQALIGEL.DNK
  489-  508 (26.50/15.71)	NAGAVC....QALTEVM....GQLcRNK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.13|      23|      25|     217|     239|       8
---------------------------------------------------------------------------
  217-  239 (39.86/21.78)	PEAQDTRKAL..SESLANFVPTIMQ
  243-  265 (30.78/15.38)	PIA..TRLDMfrTSTLAGFEPVDEQ
  271-  287 (19.49/ 7.43)	AEIEDLFDS...TVALENFV.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.24|      19|      26|     937|     956|       9
---------------------------------------------------------------------------
  937-  956 (28.29/23.58)	QAQAIQADTMLQNDlGLGLD
  964-  982 (31.96/21.50)	DAMAAAAANVAQGD.GMSVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.09|      18|      26|     169|     186|      10
---------------------------------------------------------------------------
  169-  186 (30.64/19.39)	AATAFTVDVMGQLHNSQV
  193-  210 (29.45/18.36)	ARAAFVALLLGVCENQVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.21|      23|      28|     533|     557|      12
---------------------------------------------------------------------------
  533-  557 (38.12/37.59)	FEKPATILhpLCDLLDNWKYD...EDQG
  563-  588 (36.10/26.13)	YEEFGSIL..LLVMAFAYRYGlsaSDMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      24.27|       8|      20|     339|     348|      13
---------------------------------------------------------------------------
  339-  348 ( 9.19/12.05)	ILASFdvLAN
  361-  368 (15.08/ 9.26)	LLRSF..LMN
---------------------------------------------------------------------------




































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 MDP07139 with Med5 domain of Kingdom Fungi
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