<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 MDP14925

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAGMRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKEFDSGKDPHLGDDGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMSSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPSIAMDIPEQRLSPVGFTSMEAFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKETIPARLSSDVDHDMYDRSLLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDIDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAESDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTSGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSADCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIDQSPGKYLPSGLVLVDCPDQLKTSGSHSVSISSVTEYFQALSKSWSVKSFISSLARIIKDIKLTLNISTNQKESSNMPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSVPKFVLQIVTVETLLRLHKPNELAAFKDIAFTIYNKARRIPRFVSTSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLVFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRMNAAQLTKEDRHSVLSVSIVDYYGGGTATVQEKMSRGVGGSTTSKQARNISHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYTERRSALPFHCDMVLRLRRLLHYADRHLSQLTVKGEM
Length1732
PositionKinase
OrganismHordeum vulgare subsp. vulgare (Domesticated barley)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Hordeinae> Hordeum.
Aromaticity0.07
Grand average of hydropathy-0.289
Instability index58.88
Isoelectric point5.64
Molecular weight188360.81
Publications
PubMed=23075845

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

>MDP14925
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     316.75|      93|     279|     886|    1009|       2
---------------------------------------------------------------------------
  886-  986 (146.09/83.97)	TIAVLPSPSLLVGYQDDWLKTSADCLKLWeKAPLEPYASAKPVTYYALCpDIDMlTSAATDFFMQLGTiyevcKLGTHSPQHSGGQIDQSPGKYLPSGLVL
 1166- 1258 (170.67/77.89)	TSDMFQSPTYMSRPQSTMMHTASPGPTLW.KECLVPRMSGQTLSRETEF.DASM.RSVSWDNSWQPGR.....AAGLPDPSKIPELCAQDDRKYAFEPLFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.31|      35|      98|     351|     386|       3
---------------------------------------------------------------------------
  351-  386 (61.79/39.47)	SDFFQEDE..LDFGEPPGTAESHALVTPASEFGDmPFI
  449-  485 (56.52/31.26)	SDFLTRAEatLTFAPEYAAVEISSCETPATLFTN.PYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     208.04|      61|     984|     273|     334|       4
---------------------------------------------------------------------------
  273-  334 (105.24/64.99)	ADSTACHQSDlPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQG.GCSWGWGEE
 1260- 1321 (102.80/59.46)	AEPGAVDYND.TMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSlHCCYGWTED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     159.41|      52|     397|      91|     150|       5
---------------------------------------------------------------------------
   91-  150 (76.22/61.41)	PGFTQPTICQLRGQSYYVEValgfppASTDKIsESENNQIKKEfDSGKDPHLGDD.GQQKL
  486-  538 (83.19/45.42)	PGSKKRGSCGFSSRVYSYDV......TQSSKV.ESAGDKSEKS.DKLTPANLSRDvGRSSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.65|      22|      24|     593|     615|      10
---------------------------------------------------------------------------
  593-  615 (32.93/26.66)	YFLLSMKTALATEIECiTFQAAM
  620-  641 (33.72/22.02)	HTLVSLRTKASAELKS.ALSSAM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.93|      12|      14|    1490|    1501|      11
---------------------------------------------------------------------------
 1490- 1501 (19.65/13.93)	SLHLVRSISLVA
 1507- 1518 (21.28/15.83)	SLHLACQADLLA
---------------------------------------------------------------------------




































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 MDP14925 with Med13 domain of Kingdom Viridiplantae
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