<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 MDP29766

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKLGELQNVSWFQFLPIEPDLSTASERSSKAEQKDALNNIVLSAHLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGRHSSVPEMAQHAVAKLRVVSNGLWVAPGNSEEVAAGLCQALRNSLERTLRGLSYARFGDVFTKYYPPTRNQNSFRRAQPTIEFVFAATEEAIFVHVVISARYMRNLCSDDIEKVLTHSPRSVGEGLPVIVAPSGMLGKLVGCCPSDLVRQVYSSKLSAATLPGFTQPTICQLRGQSYYVEIALGFPAATTDKVPESENNQIIKELDTVKDAQLSADEHQKLESADSVPVLERTFIYPPEAIMVPMVHQAFVRFSSKRMCSQGCMGNSSWEGWPFWNFSPSSYFLNSSCLGSSRGLGVNSNFLRLRRQKNNNYTSTASSISSVSSTSNGSEHAVAAEGGDLSADADSMACHQSDLPSNIAGSKMVSKRPRSEITEVSSRAGKESVDNNQGANGQGRCSWGWDEEGVVMDINLLISEFGDFSDFFQEEELDFGEPPGTAESHSLVIPGSDCGDATFTDSPSTAMDIPEQRLSPVGLSSLEVFNHQTMAPIHDVVSKVQEPQKDIASPTGSQSVVLSSGRSSYLTKAEALLTYAPEYAAVEISVGEAPTSLFTNPYQPKSIKPGSSSFNSRVYSYDAAQSSQMESGEDKAEKFVRLTSGNLSRDIGSSNLYTVVQVGKKESDKGLKNNEIQSGKEEASRPISGETSLNSSLVSQRKSDSMFNAGYFLLSMKTALATEIECIRFQAAMCRIRHTLLSLRSKASTELKSAFSSLMHTDVNSKLDLVPKYDIKRKENIPARLSIDVDHEVYDRSQIENVGVWRSVGTPKGATPLESFSAKTYTGPSQGLSAKRQPIVDLLSAMALIVQQSTSFVDVALDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGILGTCHSKDCAGVDLVDPLSAEVSESSVISLLQSDIKTALKTAFASMDGPLLVTDWCRGRSNAAESASIGDAYSFQHPTGDIRESSSSISIGGDSMSPPLSSHVMSNDRGTLELEHHRGYHRVRPTVAVLPLPSLLVGYQDDWLKTSANCLSLWEKAPLEPYASPKPVTYYALCPDIDMLTSAATDFFLQLGTIYEICKLGTHSPQNSGGQMELSPGKYLSSGLVLIECPDQVKIGNSHSSSISSTSEYLQALSKSWTVKSFVTSLTRVIKDIKLNSNILANQKESTSGPCTVIYVVCPFPEPSAVLETLVECSVALGSVMLSPERERKSFLYSQVTKALNCNASVDESSASNVVMLSGFSIPKIVLQIVPIGTLLRLQKPNNELAVLKDMAFTVYNKARRIPKAMTTSDMFQSPAYMGRSQSTMMHATSPGPTLWKECLVPRMSRETEFDASMRSSVTWDNSWPGRAGGFMDPNKIPDVCVQDDRKYAFEPLFILAEPGSVDYSTGMESSKSNVDTSGSGIYSSISGGGSDSGVEGSDNDNAASLHCCYGWTEDWRWLVCIWTDSKGELLDSLIFPFGGISSRQDTKVFQSLFIQILQQGCQIMSSAPECSNTRPRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPEGIPSNSNGPALQQQDMGLMQDRNMPSSPSPLYSPHAKSSFMKGGALGQSGNKKQILVEQAGMDSSKGSLHLVRSISLVAVSQDHSLHLTCQADLLARPTPGEGNQSSSGPSSYLEGFTPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVVSKAVPPVRKDSARLAKEERPSVLSVSIIDHYGGSIAAVQEKMSRGSGKQTRSFTQESAGRDHEMEMHHVLETVAAELHSLSWMTVSPVYMERRSALPFHCDMVLRLRRLLHYADRHLSQSAEKGDVA
Length1903
PositionKinase
OrganismOryza brachyantha
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Oryzoideae> Oryzeae> Oryzinae> Oryza.
Aromaticity0.07
Grand average of hydropathy-0.270
Instability index56.57
Isoelectric point5.76
Molecular weight207283.56
Publications
PubMed=23481403

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	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

>MDP29766
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     265.13|      85|     121|    1581|    1701|       1
---------------------------------------------------------------------------
 1592- 1682 (138.52/136.47)	LRRSIP.EGIPSNSN......GPALQQQDMGLMQDRNMPSSPSPlysPHAKSSFMKGGALGQSGNkkqILVEQAGMDSSKGSLHLVR..SISLVAVS.QDH
 1712- 1806 (126.60/61.82)	LEGFTPvKSIGSMSAsyllvpSPSMRYLSPATLQLPTCLTSESP...PLAHLLHSKGTAIPLAMG...YVVSKAVPPVRKDSARLAKeeRPSVLSVSiIDH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     365.99|     111|     120|     306|     423|       2
---------------------------------------------------------------------------
  306-  421 (186.40/116.30)	ADEHQKLES.ADSVPVLERTFiypPEAI....MVPMVHQAFVRFSSKRMCSQGCMGN..SSWEGWPFWNFSPSSYFLNSSCLGSSrgLGVNSNFLRLRRQKNNNYTSTASSISSVSSTSNGSE
  425-  542 (179.59/94.82)	AAEGGDLSAdADSMACHQSDL...PSNIagskMVSKRPRSEITEVSSRAGKESVDNNqgANGQGRCSWGWDEEGVVMDINLLISE..FGDFSDFFQEEELDFGEPPGTAESHSLVIPGSDCGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.18|      22|     127|     140|     161|       3
---------------------------------------------------------------------------
  140-  161 (42.20/28.22)	LRGLSY.....ARFGDVFTKYYPPTRN
  263-  289 (33.98/21.15)	LRGQSYyveiaLGFPAATTDKVPESEN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     272.91|      79|     477|     853|     936|       4
---------------------------------------------------------------------------
  853-  936 (124.51/89.79)	PKGATPLESFSAKTYTGPSQGLSAKRQPIVDLLSAMALIVQQSTsfvDVALDMdDGDGSFFWLSLDEQKRRGFsCDPSMVHAGC
 1341- 1419 (148.40/90.28)	PKAMTTSDMFQSPAYMGRSQSTMMHATSPGPTLWKECLVPRMSR...ETEFDA.SMRSSVTWDNSWPGRAGGF.MDPNKIPDVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.09|      24|      24|     743|     766|       5
---------------------------------------------------------------------------
  743-  766 (39.37/24.75)	RKSDSMFNAGYFLLSMKTALATEI
  770-  793 (38.73/24.22)	RFQAAMCRIRHTLLSLRSKASTEL
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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 MDP29766 with Med13 domain of Kingdom Viridiplantae
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