<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 MDP04366

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPIEPDASAASEKSSKVEQKDALNSIVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGCHSSVSEIAQPAVNKLRVASNGLWVAPGNSEEVAAALSQALRNSLERSLKGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVVISARYVRNLCSDDIEKVLAHSPPSIGEGLPVVVAPSGMLGRLVGCCPSDLVRQVYSSKSLTPNLPGFSQPTVCQLRGQSYYVEVALGFPAASAKKVSEFEHIHIKKELDPVKDAMVGSDGQRKVESPDGLPILERTFIYPPEAVLVPMVHQAFVRFSSKRMCLQGSLGSSSWEAWPFWNFAPSSYFQNSSFLGSSCGLGVNSNYLRLRRKKNKCNSMASSVSSVSSTSDGSQRAVATEGDIVADADSMSCRQSDMPSNNDTLGSKMVSKRPRSELTEVSSHTGKDVCENIQDPNGQVGHSWGWDDEGVVMDINILLSEFGDFSDFFQQEELDFGEPPGTAESHALVIPASDCGDVTFTDSPSTAMDIPEQRLSPVGFTTLDAFDHQIMAPAQDVVAKVQEPHNDTATPAQSHSQVLSSGRFDYLTKAEAKLTFAPEYAAVEILIAEAPTPLFTNPYFPRSKKPGSSSFSARVYSYDVAQSSQIESTGDKPDKTSKLISGNHLHDISSSNLYTLVQGGNKGSDKILKSTDTQPSKGELSPPISGVTSFNFSLVSQKKSGNMFNAGYFLLSMKTALATEIECITFQAAMCRIRHTLLSLRSKASAEFNSATSSFIQTNVSNKSDLTPRSLMDNVGVWRPVVTPKGPKSLESLSANTLTGASPSLSIQRQPVVDLLCAMTLLVQQSTSFVDMSLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSEPSMISLLQSDIRVALKAAFANMDGPLSVIDWCRGRGNAAESAGTGDAYSFQYSSGDILEPSSSLSIGGDSMSPPQPTSSNRGISELEFQKGYHRVRPTIAVLPSPSMLVGYQDDWLKASVNSLKTWEKAPFEPYALPKPVTYYALCPDIDMLTSAVADFFMQLGTVYEVCKLGTHSPQNNGGQMELSPGKYLPSGLVLVDCPEQLKKVRCGHLGPISSTSDCLQAFSKHWSVKSFVTSISRILKDIKLTSNISTNQKESSSGPCTVIYVVCPFPEPCAILQTLVECSVALGYVISSPERERKLLYSQVAKALNSSASVDEASASNVVMLSGFSIPKLVLQIVTIETVLRMDKPNKELAVLKDIAFTVYNKARRIPRAVSTSDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDFDASMRSATWDNSWQPARSGGLLDPSKLPDLCAQDDRKYAFEPLFILADPGSADLNALMEPSKSGADASGSRVYGSISGSNSDSGVSPLLDVSESDSAASLHCCYGWTEDWRWLVCIWTDARGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVIITRIGGFLELEIQEWQKAIYSYGGNEVKKWPVQLRRSIPEGIPPSSNGPTLQQQQQQDMALIQDRNMPSSPNPLYSPHPKSSFMKGALGQSGNKKQILVEQSGMDTSRGSLHLVRSISLVAVSQDHSLHLTCQADLLSRPASAGEGSQGSSGPWSYLEGFTPVKSIGSMSASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVVSKAVPPVRRDSAQLTKDEQPSVLSVSIIDHYGGSSGTVQEKMSRGGGGGSKQARNLSQETTGRECEMEMHSVLEAVAAELHSLSWLTVSPVYTERRTALPFHCDMVLRMRRLLHYADKYLSEPKGETTH
Length1892
PositionKinase
OrganismZea mays (Maize)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Andropogonodae> Andropogoneae> Tripsacinae> Zea.
Aromaticity0.07
Grand average of hydropathy-0.235
Instability index55.68
Isoelectric point5.82
Molecular weight205554.17
Publications
PubMed=19965430

Function

Annotated function Component of the Mediator complex, a coactivator involved in 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:RU364134
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

>MDP04366
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     141.94|      33|     107|    1379|    1411|       1
---------------------------------------------------------------------------
 1379- 1411 (63.60/35.09)	WQPARSG.....GLLDPSKLP..DLCAQDDRKYAFEPLFI
 1413- 1442 (30.60/12.98)	...ADPGsadlnALMEPSK.S..GADASGSRVYG....SI
 1483- 1515 (47.75/24.47)	WTDAR.G.....ELLDSLIFPfgGISSRQDTK.VLQSLFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.57|      47|     107|     900|     958|       2
---------------------------------------------------------------------------
  900-  949 (80.11/45.85)	GFSCDPSMVHAGCGGLLGTCHSKdcaGVDLVDPLSAEVSEPSMISLLQSD
 1007- 1053 (86.46/41.24)	GDSMSPPQPTSSNRGISELEFQK...GYHRVRPTIAVLPSPSMLVGYQDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     195.77|      61|     704|     351|     420|       7
---------------------------------------------------------------------------
  351-  420 (99.05/71.76)	LQGSLGS.SSWEAWPFWNFA...PSSYF...QNSSFLGSScglgVNSNYLRLRRKKNKCNsmassVSSVSSTSDGSQ
 1055- 1122 (96.72/52.14)	LKASVNSlKTWEKAPFEPYAlpkPVTYYalcPDIDMLTSA....VADFFMQLGTVYEVCK.....LGTHSPQNNGGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.34|      32|      41|     671|     708|       8
---------------------------------------------------------------------------
  671-  708 (45.76/32.59)	IESTGDKPDK..TSKLISGnhlhdISSSNlYTLVQGGNKG
  713-  746 (51.58/23.12)	LKSTDTQPSKgeLSPPISG.....VTSFN.FSLVSQKKSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     185.92|      75|     311|     210|     295|       9
---------------------------------------------------------------------------
  101-  130 (29.01/ 7.32)	QPAVNKLRVASNGLWVAPGNSEEVAAALSQ.........................................................................................................................................................................................................................................................................................................
  210-  256 (57.07/33.48)	............................................................................................................................................................................................alrnslerslkglsyarfgdvftkynpptrnqnsfrraqptvefvfaateeaifvhvvisaryvrnlcsddiekvlahsPPSIGEGLPVVVaPSGMLGRL.........VGcCPSDL..VR..QVYSSKSLTPNLPGFS
  257-  286 (30.49/20.96)	QPTVCQLRGQSYYVEVALGFPAASAKKVSE.........................................................................................................................................................................................................................................................................................................
  524-  571 (41.63/15.61)	..............................fehihikkeldpvkdamvgsdgqrkvespdglpilertfiyppeavlvpmvhqafvrfsskrmclqgslgsssweawpfwnfapssyfqnssflgsscglgvnsnylrlrrkknkcnsmassvssvsstsdgsqravategdivadadsmscrqsdmpsnndtlgskmvskrprseltevsshtgkdvceniqdpngqvghswgwddegvvmdinillsefgdfsdffqqeeldfgePPGTAESHALVI.PASDCGDVtftdspstaMD.IPEQ.......RLSPVGFTT..LDAF.
 1132- 1166 (27.73/ 6.78)	........................................................................................................................................................................................................................................................................................PSGLV..L.........VD.CPEQLkkVRcgHLGPISSTSDCLQAFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.69|      40|    1616|      51|      94|      10
---------------------------------------------------------------------------
   51-   94 (70.47/49.55)	LHLQSEG.FLS......TWTNSFVGPWDPSQGeHNPdekIKLWLFLPGCHS
 1668- 1714 (62.22/33.16)	LHLTCQAdLLSrpasagEGSQGSSGPWSYLEG.FTP...VKSIGSMSASHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.59|      11|      26|     755|     765|      12
---------------------------------------------------------------------------
  755-  765 (17.11/ 9.79)	LLSMKTALATE
  782-  792 (16.47/ 9.14)	LLSLRSKASAE
---------------------------------------------------------------------------




































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 MDP04366 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GTVQEKMSRGGGGGSKQARNLSQETTGREC
2) IPEGIPPSSNGPTLQQQQQQDMALIQDRNMPSSPNPLYSPHPKSSFMKGA
3) QSDMPSNNDTLGSKMVSKRPRSELTEVSSHTGKDVCENIQDPNGQVGHSWG
1799
1578
440
1828
1627
490










Molecular Recognition Features






MoRF SequenceStartStop




NANANA