<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 MDP32142

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMPGGPATAGLSAAVGQWTKFLARAEAKRLDPSDFARFVPILNSDFYPLPPIVIANLLLRPTKQSSYSLDPRRLQYLTILLNQKLVNPQSVLKVLHHYSTSQAKIQSEHDAGTTNEAATATKGGQGQQGDKKPKRVFWQNSYNDEEVIFLRLSKVITHGQGIRHASDAYEMATNLSKWTTLFIDVIAAFSRDTFGTIQNMRTKQDMETSLQAFSLLLVNFLGNQRVVSAFSRPEAKSHRKRLASSIDQLIPYLLQNPNTSGIAERLEFSRGQALAGEESSDLKDAAVAEMHSYMDNMIGLDTWQIPDMPIVNSRAGLYIYINAALVGRPLIDDHSLYTYLHNRYQGDLQTTAIHLILASFDVLANAVFREGSKTGHLLKSYVVNKVPLILGNFAASSTHMYPFDAEFCISQALGQVDTNVFPTLSNMFDMSNTSSSFQDSVRQDFCFACQLHGLLSASAIETLLGEITYQTLPDEGRYVKETLVQACLEDFERSQRLIGELDNMNGNVGAAAQAIVEVIGTLCRNKETMTLKQLCSQLASKPSSLDILLLFDKPYKILHPLCELLDDWGGYDEDQGEYQPVYEEFGSILLLLLAFVHRYSLTPTDLAIRSPHSFVGKLLGRGQLSRPLDELSDQEKSHLNGWVHGLFDSEAGGLGDDLMSSCPPQDFYLLMPTLFDQIVMALSTGCLNDYLLRSGLEYLLDTLLLPSLVPALLFLANNLRTDKQPGQGAVIKILQLILRPNSISNEASTMLSSVLNIVAKPLELSLRSYQRQVPASQEVEPLLRALKENLAVSSRTGGADHSELENWTGTHHNGSGSVGGLYGAIRHTVQNLVQWAQHSPGNGVPATYTHRQVLVALQICGAKRLLSALLKELKTQTEAGNGSVAYDVVTAIICAPDVHNTPVTDDNDPSSARGGGDAANHTITKKQRRITLREALKFEAEEFKKIQKSDPLMAETVVRLHRRVEAQMALPPPPPPPAQHHHHHHQQTMLQPELSALGVVAGDAMGDSMMNAAAVQVSGSDHHHPMDAMSLDATGMGGLDVGGAGGIDISGMGDMGMGNMGMGNMGGLTVNTNTGGGMGGGVGTGGQGGGSAGGGGAGASAGNGGGGGGGAGGAGGGGSGSGGAGGDLSGDDIFSGLGTGDFTTDFGNWDTMDLG
Length1154
PositionTail
OrganismNeurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Neurospora.
Aromaticity0.06
Grand average of hydropathy-0.171
Instability index38.48
Isoelectric point5.58
Molecular weight123864.63
Publications
PubMed=12712197

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	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP32142
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     163.89|      35|      36|    1057|    1092|       1
---------------------------------------------------------------------------
 1004- 1034 (40.50/15.59)	MGDSMMN...........AAAVQVSGSDHHHPM....DAMSLDatG
 1035- 1063 (44.83/18.12)	MGGLDVGG.AGGidisGM.GDMGMG.............NMGMG..N
 1064- 1092 (45.68/22.33)	MGGLTVNTnTGG....GMGGGVGTGGQGGGSAG.............
 1111- 1140 (32.89/10.89)	..........GG....AGGGGSGSGGAGGDLSGddifSGLGTG..D
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.77|      30|      36|     775|     810|       2
---------------------------------------------------------------------------
  775-  806 (44.49/23.16)	SQEVEPLLRALKEnlAVSSRTGGADHSELENW
  814-  843 (51.28/28.02)	SGSVGGLYGAIRH..TVQNLVQWAQHSPGNGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.07|      32|      37|     158|     193|       3
---------------------------------------------------------------------------
  156-  190 (53.83/39.85)	THG..QGIRHASDayeMATNLSKWTTLFID......VIAAFSR
  192-  231 (45.24/21.89)	TFGtiQNMRTKQD...METSLQAFSLLLVNflgnqrVVSAFSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.21|      24|      37|     386|     422|       4
---------------------------------------------------------------------------
  389-  413 (40.46/57.03)	LGNFAASSTHMyPF.DA...EFCISQAL.G
  424-  452 (32.76/ 9.84)	SNMFDMSNTSS.SFqDSvrqDFCFACQLhG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.77|      18|      19|     308|     326|       5
---------------------------------------------------------------------------
  308-  326 (26.57/15.65)	PIVNSRaGLYIYINAALVG
  328-  345 (34.19/16.77)	PLIDDH.SLYTYLHNRYQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.22|      12|      19|     960|     971|       6
---------------------------------------------------------------------------
  960-  971 (21.99/14.17)	HRRVEAQMALPP
  980-  991 (25.23/17.40)	HHHHHQQTMLQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.94|      28|      32|     651|     681|       7
---------------------------------------------------------------------------
  651-  681 (42.98/37.52)	GGLGDDLMSScpPQDfYLLMPTLFDQIVMAL
  684-  711 (49.96/29.72)	GCLNDYLLRS..GLE.YLLDTLLLPSLVPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.42|      27|      37|      29|      56|       8
---------------------------------------------------------------------------
   29-   56 (44.10/34.79)	LDPSDFARFVPILNSDFYPlPPIVIANL
   68-   94 (44.32/29.96)	LDPRRLQYLTILLNQKLVN.PQSVLKVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.42|      10|      30|     729|     738|      11
---------------------------------------------------------------------------
  729-  738 (16.43/11.00)	VIKILQLILR
  757-  766 (16.99/11.64)	VAKPLELSLR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.29|      17|      30|     521|     537|      12
---------------------------------------------------------------------------
  521-  537 (30.40/22.50)	LCRNKETMTLKQLCSQL
  548-  564 (30.89/22.98)	LLFDKPYKILHPLCELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.37|      16|      22|     232|     247|      13
---------------------------------------------------------------------------
  232-  247 (26.78/16.91)	PEAKSHRKRLASSIDQ
  256-  271 (27.59/17.63)	PNTSGIAERLEFSRGQ
---------------------------------------------------------------------------




































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 MDP32142 with Med5 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DVHNTPVTDDNDPSSARGGGDAANHTITKK
2) GNMGGLTVNTNTGGGMGGGVGTGGQGGGSAGGGGAGASAGNGGGGGGGAGGAGGGGSGSGGAGGDLSGDDIFSGL
3) IQSEHDAGTTNEAATATKGGQGQQGDKKPKR
4) LHRRVEAQMALPPPPPPPAQHHHHHHQQTMLQPELSALG
896
1062
104
959
925
1136
134
997










Molecular Recognition Features






MoRF SequenceStartStop




NANANA