<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 MDP27926

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSHSSRERLSAAVAAWSQLVHRALVKRTAPDQFAAFLPLHFAEHPLPPVIVADVLLRPSKRQRYSLDPRVPIYLDALLKQRRVDVASVLRALYKYSSAHLKVQSPDPGVLDGGENGRKEGGEGEGGKGAKEVKQGTPKGSKIVRWQNSYEDEEMILWRLAQAVHQGSGIRTAKNVIQIAKVLAKWMPLFAEAAAAFSRDAFDSLHGLQVRDETADARTAFVLLLIAFSDNPLVQATLEKPACKDVCKMLSDALQAFIPCVMQVLPEMASRLEVFRNETLGKHLAAEKKDADVNNYMDNLMGMDSLQIPEVPVVNSRAGLYIHLSAALVGRPVIDDSALFAYLHNRYQGDVQSTAVQLILASFDLLANAVFRNEGPKTGHLLKSFVVNKVPLILVSLTAAAMYPFDPEMCIKEALGQVDTNVFPTLSGMFEMSNTNSSFHDSVRQDFCFSCQLHGLLSQAAIENLLGEITYQSLPDEGRYSKDNLVHACLQDVDRTQKLIGELDNMNGNVGAAAQAIIEVIGSLCRNKETMTLKQLCSQLAAKPLSLDVLLLFDKPEKILHPLCELLDNWAGYEEDQGEYQPVYEEFGSILLLLLAFVYRYNLSPADLGIRSPDSFVGKLLSGGAVCRPLEDLSEQEKSHLNGWIHGLFDSEAGALGDDLMASCPPQDFYLLVPSLFHQIVVALSAGYLTDDMLKNGLEYLVDVLLLPSLVPAILYLSNQLWVSSPQLQSSIIKILQVIIRPSSSSNEAWTMLSSVLNIVAKPLEHALRSYQRQDPKSQEVEPLLRAIQDNLLLSRRTGGADHTELESWCSTHINHGATPHSGLSAAVRHTMQNLIQWAQNPQLNGMPAPYTHRQTLAAVKMLGAKRFLAILLDELRALADSPQAGIAYDVATALICAPDVTNDASLSGASGGAPSTTNNNNNKNKNSNNNSGNNTNSNTNANTNNTGNSSNNNNNNNSNNAGTPPTDDPAASSRQQQQHRHTSLRDALKSEADEWKKTQKADPVMAETVVRLYRRVEAQMAPAPPSAAEAAAAAAAAAAMLEPPELGGLGGVPGDIGGALGDAIAAAVGGEHHGLHGHEGMVMDGGGGGGGGSNGGGPDGATAAAAGAAGGDQQQQQQQQQQQQQHLGGFGGDVMTGSDLGADGLFSSLSGNGSDFGADFGAGWDIDMS
Length1170
PositionTail
OrganismMyceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799) (Sporotrichum thermophile)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Thermothelomyces.
Aromaticity0.06
Grand average of hydropathy-0.203
Instability index41.74
Isoelectric point5.34
Molecular weight125677.38
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

>MDP27926
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.42|      29|      33|     902|     930|       1
---------------------------------------------------------------------------
  902-  920 (24.53/10.39)	...............TNDASLSGASGGAPSTTNN
  921-  950 (40.90/22.43)	NNNKNKNSNNnsgnnTN....SNTNANTNNTGNS
  952-  973 (18.98/ 6.31)	NNNNNNNSNNagtppTDDPAAS............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     194.33|      39|      39|    1064|    1102|       2
---------------------------------------------------------------------------
  113-  140 (34.88/13.83)	........GGENGRKEGGEGE.....GGKGAKEVKQGTPKG.
 1036- 1062 (23.61/ 6.82)	AAAAAMlePPELGGLGGVPG...DiGGALG............
 1064- 1102 (75.16/38.87)	AIAAAV..GGEHHGLHGHEGMVMD.GGGGGGGGSNGGGPDGA
 1105- 1143 (60.68/29.87)	AAAGAA..GGDQQQQQQQQQQQQQ.HLGGFGGDVMTGSDLGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.47|      17|      26|     524|     540|       3
---------------------------------------------------------------------------
  524-  540 (30.34/20.93)	LCRNKETMTLKQLCSQL
  551-  567 (30.14/20.74)	LLFDKPEKILHPLCELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.57|      22|      31|     648|     676|       5
---------------------------------------------------------------------------
  648-  676 (30.88/34.34)	LfdsEAGALGDDLMascpPQDF.YL....LVPSL
  684-  710 (30.70/15.23)	L...SAGYLTDDML....KNGLeYLvdvlLLPSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.69|      17|      20|     813|     830|       6
---------------------------------------------------------------------------
  813-  829 (30.79/17.84)	HINHGATP..HSGLSAAVR
  843-  861 (25.90/ 9.04)	QLNGMPAPytHRQTLAAVK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.29|      65|     157|     202|     273|       8
---------------------------------------------------------------------------
  202-  273 (96.76/88.47)	FDSLHGLQVRDEtaDARTAFVLLLIAFSDNPLVQATLEK....PACKDVCkmLSDALQafiPCVMQVLPEMASRLE
  363-  431 (104.53/73.25)	FDLLANAVFRNE..GPKTGHLLKSFVVNKVPLILVSLTAaamyPFDPEMC..IKEALG...QVDTNVFPTLSGMFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.40|      16|      20|      74|      90|       9
---------------------------------------------------------------------------
   74-   90 (22.10/19.31)	YLDALLKQRRVDvASVL
   96-  111 (29.30/20.56)	YSSAHLKVQSPD.PGVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.45|      19|      20|     724|     742|      14
---------------------------------------------------------------------------
  724-  742 (30.19/21.56)	SSPQLQSSIIKILQVIIRP
  745-  763 (31.25/22.59)	SSNEAWTMLSSVLNIVAKP
---------------------------------------------------------------------------




































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 MDP27926 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LGDAIAAAVGGEHHGLHGHEGMVMDGGGGGGGGSNGGGPDGATAAAAGAAGGDQQQQQQQQQQQQQHLGGFGGDV
2) SPDPGVLDGGENGRKEGGEGEGGKGAKEVKQGTP
3) TNDASLSGASGGAPSTTNNNNNKNKNSNNNSGNNTNSNTNANTNNTGNSSNNNNNNNSNNAGTPPTDDPAASSRQQQQHRHTSLRDALKSEADEWKKTQKADPVMAETVVRLYRRVEAQMAPAPPSAAEAAAAAAAAAAMLEPPELGGLGGVPGD
1061
105
902
1135
138
1056










Molecular Recognition Features






MoRF SequenceStartStop




1) ATAAAAGAAG
2) DFGADFGAGWDIDMS
3) DLGADGL
4) HLGGFGGDVMTG
1102
1156
1140
1127
1111
1170
1146
1138