<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 MDP15113

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTLLVARWVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSNAGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSGEGNQSSSNTSSSASYLDGFAPVKSIGSMSASSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYGGTTVQDKMSRGSKQAARHETSAARDYETDMHNVLEAVAAELHSLSWMTASPVFMERRSALPFHCDMVLRLRRLLHYADRHLSQSTEKGDVS
Length1453
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 index60.89
Isoelectric point5.66
Molecular weight157986.00
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

>MDP15113
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.74|      52|      54|      52|     104|       1
---------------------------------------------------------------------------
   52-  104 (87.15/55.40)	MDI.NILLSEFGdFSDF..FQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPS
  107-  161 (78.59/45.31)	MDIpEQRLSPVG.FTSMeaFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.17|      26|     505|     780|     809|       2
---------------------------------------------------------------------------
  780-  809 (38.44/33.71)	YVVCPFPEpsavLQTLVESSVALGSILSSE
 1284- 1309 (46.73/29.92)	YLLVPSPS....MRYLSPATLQLPTCLTSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     167.89|      53|     185|     905|     972|       4
---------------------------------------------------------------------------
  905-  960 (90.25/78.51)	QSTMMHT.ASPGPTlwKECLApRMSGQTLSRET.EF..DASMRSVSWDNSWQPGRAAGLP
 1186- 1242 (77.64/37.69)	HSKSSFTkGQPGNK..KQILV.EQTGMESSRGSlHFvrSISLVAVSQDSSLHLACQADLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.82|      22|     825|     202|     235|       7
---------------------------------------------------------------------------
  202-  227 (30.49/43.44)	SKKRGscgfSSRVYSYDVTQSSKVES
  242-  263 (36.33/16.83)	NLSRD....AGRSNLYTLVQGRKKES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     188.72|      70|     311|     646|     751|       9
---------------------------------------------------------------------------
  666-  688 (18.20/31.40)	........................................................................TSAATDFFMQLGTIYEVCKLGTH
  689-  735 (69.78/60.56)	SPQ.....HSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYF...........................................
 1310- 1404 (100.74/68.64)	SPPlahllHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYggttvqdkmsrgskqaarheTSAARDYETDMHNVLEAVAAELH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     117.01|      31|      91|     276|     306|      12
---------------------------------------------------------------------------
  276-  306 (50.36/27.74)	KGETSRPVSGE..TSFSSSLS..LQKKSDNMLNVG
  344-  367 (21.64/ 7.53)	........SAElkSALSSAMQ..TESGSNSDL.VP
  368-  399 (45.00/23.97)	KYDVKRKESIP..ARLSSDVDheMYDRS.RMENVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.85|      39|     995|      10|      48|      16
---------------------------------------------------------------------------
   10-   48 (70.46/32.66)	SKRSRSEITEVSSHAGKEVRENMQGTNGQG.GCSWGWSEE
 1007- 1046 (66.39/30.39)	SSRVYSSISGGTDSGASPLLEGSENDSGTSlHCCYGWTED
---------------------------------------------------------------------------




































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 MDP15113 with Med13 domain of Kingdom Viridiplantae
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