<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 MDP27939

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDAGPATAGLPAAVAVWSEFIRRALNRRLDQEKFAAFVPILFSQHPIPPVILADFILRPSDVTRYSLDPRAFLYLQVLLKQRRLDIASVLRALYKYSSIHELVRPQDGASAAPGDGAAEEKKTPGKLVRWQNSYEIDEILLWRFAKAVNAGTAITTAETAIHVAKVLAKWMPLFTEAAAIFSREAFSSLHGMPPRDETARARNAFALLVFAFSENPVVIKTLSRPAFKGLCKTLSDSLVAFMPCIMQVMPEVAGALELFRTQTLCKFLPSEKKESELNNYMDNLIGLDSLQIPEVPVVNTRAGLYIYLSAALVGRPMLEDSALFTYLHNRYQGDVQSTAVQLILASFDLLANAVFRNEGPRTGHLLKSYVVNKVPLILVSLAASSAVYPFNPEMCITEALGQVDTNVFPTLSGMFEMSNTGSSFHDSVRQDFCFSCQLHGLLSQAAIENLLGDITYQSLPDEGRYVKEILVQSCLQEVDRTQKLIVELDNMNGNVGAAAQAIIEVIGNLCRTKETMTLKQLCSQLAAKPLSLDVLLLFDKPQKILHPLCELLDNWAGYEEDQGEYHPVYEEFGSILLLLLAFVYRYNLSPADLGIRSPDSFVGKLLNAGNLCRPLEELNEREKAHLNGWIHGLFDTEAGGLGDDLMASCSPQDFYLLMPTLFHQVVIALSAGRLTDDMLKCGLEYLVGVLLLPSLVPAILYLSNQLWVGGPQIQTAIIKTLQPILRPSSISHEASTMLSSVLNIVAKPLEHALRSYQRQDPKCQEIEPLLEAIRDNLAVSRRTGGADHTELESWSSMHATNATNGSGITHGGLTAAVRHTVQSLVQWAQQPPLNGMPAAYTHRQTLAALKMLGAKRLLSILLEELKSFADSPQAGIAYDVITAIICAPDVTNDPSLANAATGPPSAADAAASSTNNNNTTPASTPAPQQRRISLREALKAEADDWKKTMRSDPALAETVVRLHRRVEAQMAPPPPPPETTAAAAMLQPELGGLGVDVGADAAALGDAIAAAAAAAGEHHDAAAAAMALDAAGLDAAAGGTVPDLGALGGGAPADLAAQVGAGGGNGGGNGGGGGGGLDLSGDDIFGGLTGASDFGAEFSGWDMDLG
Length1106
PositionTail
OrganismThielavia terrestris (strain ATCC 38088 / NRRL 8126) (Acremonium alabamense)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Thermothielavioides> Thermothielavioides terrestris.
Aromaticity0.07
Grand average of hydropathy0.055
Instability index44.54
Isoelectric point5.16
Molecular weight118456.10
Publications
PubMed=21964414

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. 
ECO:0000256	RuleBase:RU364142
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

>MDP27939
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.74|      31|      32|     993|    1023|       1
---------------------------------------------------------------------------
  966-  992 (38.94/13.53)	....V.EAQMAPPPPPPETTAAAAMLQPELGG
  993- 1023 (48.97/18.67)	LGVDV.GADAAALGDAIAAAAAAAGEHHDAAA
 1026- 1057 (43.84/16.04)	MALDAaGLDAAAGGTVPDLGALGGGAPADLAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     811.79|     214|     219|     226|     444|       2
---------------------------------------------------------------------------
   23-  224 (250.28/167.39)	..RALNRRLdQEKFAAFVPILFSQHP..........IPPVI........LADFIlrPSDVTRYSLDPraflYLQVLLKQRRLDIASV......LRA.LYK.YSSIHELVRP..QD............GA..SAAPG..DGAAEEKKTPGKLVrwQNSYE....IdeillwrFAKAV...NAGTAITTAETAIHVAKVLAKWMP..L..............FTEAAAIFSR...EAFSSLHGMP..PRDETARARNAFA.LLVFAFSENpvVIKTLSR
  226-  444 (355.05/253.57)	AFKGLCKTL.SDSLVAFMPCIMQVMPE.........VAGAL.ELFRTQTLCKFL..PSEKKESELNN....YMDNLIGLDSLQIPEV..PVVNTRAGLYI.YLSAALVGRPMLED............SALFTYLHN..RYQGDVQSTAVQLI..LASFD....L.......LANAVFR.NEGPRTGHLLKSYVVNKVPLILVS..LAASSAVYPFnpemcITEALGQVDT...NVFPTLSGMF..EMSNTGSSFHDSV.RQDFCFSCQ..LHGLLSQ
  446-  654 (206.46/136.53)	AIENL...L.GD.......ITYQSLPDegryvkeilVQSCLqEVDRTQKL...........IVELDN.....MNGNVGAAAQAIIEVigNLCRTKETMTLkQLCSQLAAKPLSLDvlllfdkpqkilHPLCELLDNwaGYEED..QGEYHPV..YEEFGsillL.......LLAFVYRyNLSPADLGI.......RSPDSFVGklLNAGNLCRPL.......EELNEREKahlNGW..IHGLFdtEAGGLGDDLMASCsPQDF..............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.81|      28|      31|     788|     818|       3
---------------------------------------------------------------------------
  790-  818 (43.93/32.14)	ELESWSSMHATNATnGSGITHGGLTAAVR
  823-  850 (48.89/24.23)	SLVQWAQQPPLNGM.PAAYTHRQTLAALK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.34|      18|      18|    1067|    1084|       4
---------------------------------------------------------------------------
 1067- 1084 (34.67/17.82)	GGNGGGGGGGLDLSGDDI
 1086- 1103 (35.67/18.54)	GGLTGASDFGAEFSGWDM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.85|      22|      30|     905|     926|       5
---------------------------------------------------------------------------
  887-  903 (20.38/ 8.62)	.....APDVTNDPSLANAATGP
  905-  926 (35.33/20.40)	SAADAAASSTNNNNTTPASTPA
  933-  954 (34.15/19.47)	SLREALKAEADDWKKTMRSDPA
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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 MDP27939 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AETVVRLHRRVEAQMAPPPPPPETTAAAAMLQPE
2) NDPSLANAATGPPSAADAAASSTNNNNTTPASTPAPQQRRISLREALKAEADDWKKTMRSDPA
956
892
989
954










Molecular Recognition Features






MoRF SequenceStartStop




NANANA