<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 MDP17821

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSRTAAAEAMRSAIEYWSQFVARSISQRLDTEKFENYVQLVHDQHPLPPALVADFFLRPQPSNDNSLDPRIPPYLQVLTRLGYVDAPSILKALYKYSSLHAYAQQPNANEGKDNEKENEKSDDKETDGKKQKITRWKSSYWAEEVLFYGITKSVVEGKAIRDSKTALDMTRIISKLMVLFTTAFAADMIEQLHTAQVRDEMESSRAALVALLLRMCENDILVGAVSKPIAKDVRKEMSAGLASFVPTLQLVPQITDKLEQFRTEILASSDPADKKKQATNAAMDELLDSAVGLDNFVVTDIPVSNTRAGLYIYLNAALIARPLLDDHALFSYMSNKYQGDIQSSAIDLILASFDILANAVFRNEGQKDAHLLRSFLINKVPILLYQLLPPGFPGTSAEFCITEALSHVDTSLFPTASLMFDESRNNNPYTESIREEFCAACVLHGLVQREHVERILGEISLSYEPSLQKHSKDKLVQDCLSDTEKIQGLVRELDKMDGNVGAVCQALVEVLRQSCHNKETMSLKVLCSQLAAKPQSLDVILLFEKLPNILEPLCQLLDNWRYEDDQEEYQPVYEEFGAVLLLVLAFTYRYNLNAVEIGIASPDSWVAKIIGRGHIGRQCNELTQRENDHLNGWIHGLFDTEAGGLNDELMSSCPPQEFYLVVAPLFQSIVVAYTHGYLNDESLKGGIEYLVDTFLLPSLVPAIRFLADYLWIDQKEQKSIIKILQLILLPSSISGEASTMLSSVKNLIAKPLEHALRTYQRRDPNNQDIEPLLRTLKDSIPLSRRTGGTDLNELESWTTTPPTGLSSAIKLTIQGLVHWSIHPAMNSMPTSYTHRQILAALKIMGPRRVLHVILEEIRQHTEAGSASIVYDVTISLICAPDAAKDAPAVVDANGNMLPPVQRQRSLRDLLKVEAESCRKLQKRDPALAEIVVRLHRRVEAQMIIPQPPGMLQTAEMSLNLDGDTAGLGDAMAAAASGVQGDNMSVDNLTLDVSMGGVPSDLGLGSANDGGSLDPSGDAAMFEGFDTQDMDNFDWDDIGNSF
Length1042
PositionTail
OrganismGibberella nygamai (Bean root rot disease fungus) (Fusarium nygamai)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Fusarium> Fusarium fujikuroi species complex.
Aromaticity0.07
Grand average of hydropathy-0.169
Instability index45.35
Isoelectric point4.97
Molecular weight115606.44
Publications









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

>MDP17821
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     362.18|     122|     137|     380|     516|       1
---------------------------------------------------------------------------
  380-  516 (178.05/140.87)	K....VPILLYQLLPPgfPGTSAEFCITEALSHVdtsLFPTASLMfDESR...NNNPYtESIREEFCAACVL.HGLVQREHVERIlgEISLSYEPS.LQK.HSKDKLVQDClsdTEKIQglvRELDKMDGNVGAVCQ....ALVEVLRQSC
  519-  654 (184.13/106.37)	KetmsLKVLCSQLAAK..PQSLDVILLFEKLPNI...LEPLCQLL.DNWRyedDQEEY.QPVYEEFGAVLLLvLAFTYRYNLNAV..EIGIASPDSwVAKiIGRGHIGRQC...NELTQ...RENDHLNGWIHGLFDteagGLNDELMSSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.63|      50|     158|     741|     816|       2
---------------------------------------------------------------------------
  319-  376 (70.96/33.13)	LIARPLldDHALFSYMsnkyQGDIQSSAIDLILASF.DILanAVFRNEGQKDAHLLRSF
  748-  798 (84.67/75.61)	LIAKPL..EHALRTYQ....RRDPNNQDIEPLLRTLkDSI..PLSRRTGGTDLNELESW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.90|      28|      32|     669|     699|       3
---------------------------------------------------------------------------
  672-  699 (48.58/24.01)	VAYTHGYL.NDESLKGGIEYLVDTFLLPS
  704-  732 (39.32/17.53)	IRFLADYLwIDQKEQKSIIKILQLILLPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      69.69|      17|      34|     197|     213|       4
---------------------------------------------------------------------------
  197-  213 (27.20/18.90)	QVRDEMESSRAALVALL
  233-  249 (25.89/17.62)	DVRKEMSAGLASFVPTL
  254-  268 (16.61/ 8.52)	QITDKLEQFRTEILA..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.13|      21|     774|     281|     302|       5
---------------------------------------------------------------------------
  281-  302 (32.58/22.98)	NAAMDELLDSAvGLDNFVVTDI
 1018- 1038 (42.54/26.13)	DAAMFEGFDTQ.DMDNFDWDDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.38|      15|     144|     802|     816|       7
---------------------------------------------------------------------------
  802-  816 (25.13/13.37)	PPTGLSSA.IKLTIQG
  948-  963 (22.47/11.23)	PPGMLQTAeMSLNLDG
  964-  978 (22.78/11.48)	DTAGLGDA.MAAAASG
---------------------------------------------------------------------------




































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 MDP17821 with Med5 domain of Kingdom Fungi
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