<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 MDP27639

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMVTVTDPLTARLEAAIKAWSDFFSDAEHERLDPAIFADQSQTLFANHPLAPVPLADLLLRPTPSNRECVDQRTLQYLQVLQKQGRITTAAVLRALYKYSTAHTRAQTPDGKPKHGAGDSSTNDADVGGSSKADLTSRMVRWRNSYMVEEDVLWRLARAVNHGTGIKTSHDVTEVAKVLARWTALFAEVSAAISRDAFNSMNGLQVKDESEDARNAFVLFYFAFCENQLVNETLSQPVCKDICRKLLDSLDAFLPTLMHLTADITGRLEHFRSEVLARYAPQEKKSMDMPSFMNDLSMSLESFQVPELPVVNTRAGLYIYLGAALVGRPMIDDEALFSYLHNRYQGDLQAMAVHLILASFDLLANAVFRNEGAKTGHLLKSFLINKVPLILVQLVAYAATTMYPFNAEMCITEALNQVDINMFPTLSGMFDMPNNNSFNDSVRQDFCFACQLHGLLSQAAIETLLGDITYQSLPPEGRYVKEQLVQACLQEPDRTLKLIGELDNMNGNVGAAAQAIVEICRDLASKPLSLDVLLLFDKPHKILHPLCELLDNWAGYEEDHGEYQPVYEEFGSVLLLLLAFVYRYNLSTADLGIRSSGSFVAKLLNGVDRCQPLEQLSEQEKSHLGGWIHGLFDTEAGGLGDELMSSCPPQDFYLLAPTLFHQIVNALSAGYLTDEMLKGGLEYLVDVLLLPALVPALLYLSNLLWADNQPIQNAVIKILQPILKPTSISNEASTMLSSVLNIVAKPLEHALKSYQRQDPECQKIEPLLLAIADNLAVSRRTGGADHTELESWCSAQITNPATGALIHGGLAAAVRTTIQQLVQWAQNPTLNSMNGMPAPYTHRQTLAAQQILGPHRLLGIILDELKSSPEPGIAYDVVTTMICAPDVRNSTISSPSTQSNNSSDHNDQAQNHQSQDAKHKHPHRLTLRDALRLEAHDFRAHLRADPVLAETVVRLYRRVEAQLTPLALPLPPAAAAAPAVGVNVGVDAATAAAAAAAAAMMPDALGLGVVGGVELGGMEGAIAAAVAAANGSGTGGAGGDGTQGGAGDAGMGLDGQQQGQGGSSAGDMGLGGGTADDIFSGLSGPDDFGADFGSWSMDLS
Length1099
PositionTail
OrganismChaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Chaetomium.
Aromaticity0.07
Grand average of hydropathy-0.047
Instability index38.29
Isoelectric point5.00
Molecular weight118675.43
Publications
PubMed=21784248

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
>MDP27639
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     125.59|      32|      34|     986|    1019|       1
---------------------------------------------------------------------------
  987- 1019 (38.57/24.61)	.AATAAAAAAAAAMMpDALGLGVVGGVeLGGMEG
 1024- 1043 (35.44/14.64)	AV......AAA.....NGSGTGGAGG...DGTQG
 1053- 1083 (51.57/24.49)	DGQQQGQGGSSAGDM..GLGGGTADDI.FSGLSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.05|      29|      33|     635|     666|       2
---------------------------------------------------------------------------
  635-  666 (46.45/33.22)	AGGLGDELMSSCPPqdfYLLAPTLFHQIVNAL
  668-  696 (46.60/25.22)	AGYLTDEMLKGGLE...YLVDVLLLPALVPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.55|      23|      29|     791|     819|       3
---------------------------------------------------------------------------
  791-  819 (28.01/33.50)	WcsAQitNPATGALihGGLAAAV..RTTI..QQ
  823-  849 (37.55/20.70)	W..AQ..NPTLNSM..NGMPAPYthRQTLaaQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.07|      19|      35|     248|     271|       4
---------------------------------------------------------------------------
  248-  271 (25.73/26.74)	SLDafLPTLMHltaDITGRLEHFR
  285-  303 (36.34/20.67)	SMD..MPSFMN...DLSMSLESFQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.57|      31|      35|     354|     387|       5
---------------------------------------------------------------------------
  352-  376 (27.80/20.16)	........VHLIL...asFDLLANAV.....FRNEGAKTGH
  378-  413 (44.48/28.37)	LKSFLINKVPLIL.....VQLVAYAAttmypFNAEMCITEA
  414-  442 (31.30/13.66)	LNQVDINMFP...tlsgmFDMPNNNS.....F.NDSVR...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.73|      12|      29|     712|     723|       6
---------------------------------------------------------------------------
  712-  723 (20.09/14.72)	NAVIKILQPILK
  740-  751 (20.64/15.33)	NIVAKPLEHALK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.26|      13|      29|     570|     582|       7
---------------------------------------------------------------------------
  570-  582 (21.71/14.24)	GSVLLLLLAFVYR
  596-  608 (22.55/15.11)	GSFVAKLLNGVDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.18|      18|      29|     931|     948|       9
---------------------------------------------------------------------------
  931-  948 (30.95/18.25)	RLEAHDFRAHLRADPVLA
  957-  974 (30.23/17.63)	RVEAQLTPLALPLPPAAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     130.46|      37|      37|     151|     187|      10
---------------------------------------------------------------------------
  114-  157 (38.13/26.89)	.....HGAGDSSTNDAdvggsskADLTSRMVRWRNSYmveEDVLWRLAR
  158-  194 (58.96/46.39)	AVN..HGTGIKTSHDV.......TEVAKVLARWTALF...AEVSAAISR
  196-  225 (33.37/22.43)	AFNsmNGLQVKDESED.......ARNAFVL..FYFAF...CE.......
---------------------------------------------------------------------------




































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 MDP27639 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GTGGAGGDGTQGGAGDAGMGLDGQQQGQGGSSAGDMGL
2) RNSTISSPSTQSNNSSDHNDQAQNHQSQDAKHKHPHRLTLRDA
1032
887
1069
929










Molecular Recognition Features






MoRF SequenceStartStop




1) FGADFGSWSMDL
1087
1098