<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 MDP15097

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFYGSSRGLGVNSNFLRLRRQRNSSSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACRQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSG
Length1351
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-0.324
Instability index59.74
Isoelectric point5.35
Molecular weight146840.82
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

>MDP15097
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     183.17|      52|      56|     838|     893|       1
---------------------------------------------------------------------------
  798-  824 (29.16/ 9.74)	.............................EQSPGKYLPSGLVLVECPDQLKSSGSH
  838-  893 (81.01/51.55)	LSKSWSVKSFLssLARVIKDikLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQ
  906-  952 (72.99/37.06)	LSSERERKSFL..YTQVAKA..LNSSASADEASASN.....VVMLSGFSIPKLVLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.25|      52|      54|     152|     204|       2
---------------------------------------------------------------------------
  152-  204 (87.26/59.86)	MDI.NILLSEFGdFSDF..FQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPS
  207-  261 (77.99/48.49)	MDIpEQRLSPVG.FTSMeaFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.51|      53|     185|    1005|    1072|       3
---------------------------------------------------------------------------
 1005- 1060 (89.87/71.66)	QSTMMHT.ASPGPTlwKECLApRMSGQTLSRET.EF..DASMRSVSWDNSWQPGRAAGLP
 1286- 1342 (78.64/35.03)	HSKSSFTkGQPGNK..KQILV.EQTGMESSRGSlHFvrSISLVAVSQDSSLHLACQADLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     308.07|     102|     267|      21|     132|       4
---------------------------------------------------------------------------
   21-  132 (156.85/101.37)	SPSSYFRNSSFYGS.SRG.LGVNSnflRLRRQRNSSSngmaSSISSVSSTSNGSEHAVAAkggDLLADADSTAC........RQSDLPLNN.DIAGSKMVSKRSRS.EITEVSSHAGKEVRENM
  289-  402 (151.23/77.97)	SPATLFTNPYLPGSkKRGsCGFSS...RVYSYDVTQS....SKVESVGDKSEKSDKLIPA...NLSRDAGRSNLytlvqgrkKESEKSLNNaDEQSCKGETSRPVSgETSFSSSLSLQKKSDNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.09|      23|      83|     514|     566|       6
---------------------------------------------------------------------------
  514-  537 (34.88/61.70)	DCLSANTFTgTSPSVQRQPIVELL
  570-  592 (43.21/11.99)	DEQRRRGFS.CDPSMVHAGCGGLL
---------------------------------------------------------------------------




































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 MDP15097 with Med13 domain of Kingdom Viridiplantae
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