<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 MDP30070

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIVDLQTVSWFQFLPIEPDASTTKERSSKAEQKDALNNVVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGRHSSVSEMAQTAVNKLRVASNGLWVAPGNSEEVAAALSQALRNSLERSLRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVLISARYMRNLCSDDIEKVLTHSPRSVGEGLPVVVAPSGMLGRLVGCCPSDLVRQVYPSKSSAPNLPGFTQPTVCQLRGQSYYVEVALGFPAASADRVSESEQIQIKKEMDSVKDSQLGADGQRKVESPDSLPVLERTFIYPPEAVLVPMVHQAFVRFSSKRMCLQGSLGGSLWEAWPFWNFTPSSYFQNSSFLGSSRGLGVNSNFLRLRRKKNKCNNMASSVSSVSSTSDGSEHAVATEGDLLADADSMVRRQSDTPSNNENAGSKTVSKRPRSEITEVSSHAGKDVSENVQGANGQVGRPWGWDDEGVVMDINILLSEFGDFSDFFQEEELDFGEPPGTAESHALVIPASDCGDVTFTDSPSTAMDIPEQRLSPVGFTSLDAFDQQIMAPAQDAVSKVQEPQKDVATPAQSQSLVLSSGRFDYLTKAEAMLTFAPEYAAVEVSVAEVPASLFTNPYLPRSKKPGSSSFSSRVYSYDVTQSSQIESAGDKPEKPSKSGNPLRDVDSSNLYTLVQGGKKESDKSLNSTDIQPTKGGTSPPISGVTSFSSSLVSQKKSDSMFNAGYFLLSMKTALATEIECITFQAAMCRIRHTLLSLRRKASADFNGAMSSFMQTDVSNKSDLTPKYDIRKKEVMPIRLSSDVEHETHDRSLMESVGVWRPVVTPKGANSLESLSAKTLTGASPSQSMQRQPVVDLLFAMALLVQQSTSFVDISLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLYAEVSESSMFSLLQSDIRTALKTAFANMDGPLSVIDWCRGRSNPPESAATGDAYSFQYSTGDIREPSNTLSIGGDSMSPPQPTSSNRGTSELEHQKGYHRVRPTIAVLPSPSMLVGYQDDWLKVSVNSLKTWEKAPFEPYASPKPVTYYALCPDIDMLTSAATDFFLQLGTVYEVCKLGTHSPQNSGGQMELSPGKYLPSGLVLVECPDQVKKVGSSHLSPISSISDYLQAFSKHWSVKSFLTSVSRILRDIKLTSSISTNQKESSSGPCTVIYVVCPFPDPGAILQTLVECSVSLGYVISSPERERKSLYFQVAKAQNSSACADEASASNVVMLSGFSIPKLVLQIVTIETVLRIDKPSNELAVLKDIAFTVYNKARRIPRAVSTNDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDFDAPMRSATWDNSWQPARAGLLDPSKIPDLCAQDDRKYAFEPLFILADPGSVDPNASMESSKSGADASGSGVYASDSGASPLLDGSECDRAASLHCCYGWTEDWRWLICIWTDARGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVMITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPEGIPSNSNGPALQQQDMTLIQDRNMPSSPNPLYSPHSKSSFMKGGLGQSGNKKQILVEQTGMDNSRGSLHLVRSISLVAVSQDHSLHLTCQADLLTRLAPGEGNQGSSGPLSYLEGFTPVKSIGSMPASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVVSKAVPPVRRDSAQLTREDRPSVLSVSIIDHYGGSIGMVQEKMSRGAGGSNMSKQARNFTQETSTRDYEMEMHSVLETVAAELHSLSWLTVSPVYTERRTALPFHCDMVLRLRRLLHYADRHLTQPAEKGETA
Length1906
PositionKinase
OrganismSetaria italica (Foxtail millet) (Panicum italicum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Panicodae> Paniceae> Cenchrinae> Setaria.
Aromaticity0.08
Grand average of hydropathy-0.300
Instability index56.39
Isoelectric point5.75
Molecular weight208061.36
Publications
PubMed=22580951

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. 
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP30070
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.08|      40|      54|     492|     531|       1
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  468-  490 (19.53/ 6.93)	..............SHAGkDVS..ENVQGANGQVGRPWG.....
  492-  531 (71.81/48.40)	DDEGVVMDI.NILLSEFG.DFS..DFFQEEELDFGEPPGTAESH
  547-  585 (51.75/32.49)	DSPSTAMDIpEQRLSPVG..FTslDAFDQQIM...APAQDAVSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     206.65|      51|     126|    1213|    1263|       2
---------------------------------------------------------------------------
 1213- 1263 (88.15/44.75)	ISTN...QKESS...SG..PCTVIYVVCPFPDPGAILQTL.VECSVSLGYVISSPERERK
 1269- 1319 (62.13/29.48)	VAKA...QNSSAcadEA..SASNVVMLSGFSIPKLVLQIV....TIETVLRIDKPSNELA
 1339- 1385 (56.37/26.10)	VSTNdmfQSPTY...LGrsQSTMMHVTSPAP.......TLwKECLVP...RMSGPTLSRE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     186.77|      54|      56|     882|     936|       3
---------------------------------------------------------------------------
  859-  898 (51.14/24.07)	..............SLSAKT...LTGA.SPS.QSMQRQPVVDLLFAMALLVQQSTSFVD
  900-  953 (98.62/54.92)	SLDMDDGDGSFFWLSLDEQK...RRGF.SCD.PSMVHAGCGGLLGTCHSKDCAGVDLVD
  954-  995 (37.01/12.76)	PLYAEVSESSMFSLLQSDIRtalKTAFaNMDgPLSVIDWCRG.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.80|      29|      34|     657|     685|       4
---------------------------------------------------------------------------
  657-  685 (53.05/28.90)	SSRVYSYDV....TQSSQIESAGDKPE.....KPSK...SG
  693-  722 (36.59/17.55)	SSNLYT..L....VQGGKKES..DKSLnstdiQPTK...GG
 1128- 1156 (24.16/ 8.98)	......YEVcklgTHSPQ.NSGGQMEL.....SPGKylpSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     258.10|     106|     729|     273|     395|       5
---------------------------------------------------------------------------
   24-   95 (62.37/26.54)	................................................................PDASTTKERSSKAEQKDALNNVVLSAYLHLQS.....EGFL..STWTnsfVGP.WD..PSQGEHNPDekiklwlFLpGrhSS
  264-  383 (161.68/115.91)	RG...QSYYVEV........ALGFPAASADRVSESEQIQIKKEMDSVKDsqlgADG..QRKVESPDSLPVLERTFIYPPEAVLVPMVHQAFVRFSSkrmclQGSLggSLWE...AWPfWNftPSSYFQNSS.......FL.G..SS
  384-  444 (34.05/15.61)	RGlgvNSNFLRLrrkknkcnNMASSVSSVSSTSDGSEHAVATEGDLLAD....ADSmvRRQSDTP.................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     181.50|      42|      60|    1641|    1700|       6
---------------------------------------------------------------------------
 1039- 1078 (55.81/21.37)	SSNRGTSE....LEhQKG.YHRVRPTIAVLPSPSMLVGYQDDWLK....
 1643- 1684 (70.49/60.13)	SGNKKQIL....VE.QTG.MDNSRGSLHLVRSISLVAVSQDHSLHL.TC
 1702- 1747 (55.20/18.37)	SGPLSYLEgftpVK.SIGsMPASHSYL.LVPSPSMRYLS.PATLQLpTC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.20|      24|      26|     113|     138|       7
---------------------------------------------------------------------------
  113-  138 (34.54/23.12)	GLWVApgNSEEVAAALSQALR..NSLER
  142-  167 (39.67/20.03)	GLSYA..RFGDVFTKYNPPTRnqNSFRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.52|      27|      54|    1387|    1423|       8
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 1387- 1421 (46.32/34.02)	DFDAPMRSAT..WDNSWQPARAG......LLDPSkipdlcaqD
 1440- 1474 (33.20/10.23)	DPNASMESSKsgADASGSGVYASdsgaspLLDGS........E
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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 MDP30070 with Med13 domain of Kingdom Viridiplantae
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