<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 MDP15108

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFYGSSRGLGVNSNFLRLRRQRNSSSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACRQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSGEGNQSSSNTSSSASYLDGFAPVKSIGSMSASSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYGGTTVQDKMSRGSKQAARHETSAARDYETDMHNVLEAVAAELHSLSWMTASPVFMERRSALPFHCDMVLRLRRLLHYADRHLSQSTEKGDVS
Length1569
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-0.316
Instability index61.30
Isoelectric point5.81
Molecular weight170697.74
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

>MDP15108
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     325.76|      93|     185|     206|     309|       1
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  208-  309 (132.53/93.43)	SeyGDMAFidSPSVAMDIPEQRLSPVGF..TS.ME.AFNHQTMS.PIQDVASKVQEPLKEIASS....AGSQslVLSSSRSDFLT.......RAEATLTFAPEYaavEISSCES.PATL
  318-  396 (70.37/32.39)	...................SKKRGSCGF..SSrVY.SYDVTQSS.KVESVGDKSEKSDKLIPANlsrdAG.........RSNLYTlvqgrkkESEKSLNNADE......QSCKG.ETS.
  400-  497 (122.85/61.83)	S..GETSF..SSSLSLQKKSDNMLNVGYflLS.MKtALATEIECiTFQAAMCRIRHTLVSLRTK....ASAE..LKSALSSAMQT.......ESGSNSDLVPKY...DVKRKESiPARL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.91|      36|      87|     712|     748|       2
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  712-  748 (60.45/35.03)	GTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDwLKTS
  802-  837 (66.46/33.72)	GTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQ.LKSS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     414.64|     134|     211|    1078|    1224|       4
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 1078- 1224 (221.05/125.38)	PSKIPELCAQD...................DRKYAFEPlfilAEPG....AVDYNDAMESSRfgadaSSSRVYSSISGGTDSGASPLLEGSEND.SGTSLHCCYGWTEDwrwlVCIWTDSRGELLDSL..IFPFGGISSRQDTTV....LQSLFIQILQ.QGCQIMSSSPEASNTRSR
 1272- 1436 (193.59/89.34)	NSNGPTLEQQDmglihdrnmpsspsmlynpHSKSSFTK....GQPGnkkqILVEQTGMESSR.....GSLHFVRSISLVAVSQDSSLHLACQADlPATRPTSTSGEGNQ....SSSNTSSSASYLDGFapVKSIGSMSASSYLLVpspsMRYLSPATLQlPTCLTSESPPLAHLLHSK
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.45|      24|     824|     177|     202|       9
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  177-  202 (41.24/25.39)	FGDFSDFFQEDelDFGEPPGTAESHT
 1004- 1027 (45.21/22.79)	FVSTSDLFQSH..SYMSRPQSTMMHT
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.55|      41|      66|     845|     890|      10
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  845-  890 (54.94/45.90)	SSVTeYFQALSKSWSVKSFLssLARVIKDikLTSNISTNQKESSNI
  914-  954 (65.61/37.95)	SSVA.LGSILSSERERKSFL..YTQVAKA..LNSSASADEASASNV
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     145.33|      47|      83|     530|     582|      11
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  530-  582 (70.62/64.93)	DCLSANTFTGTSPSVQRQPIVELLSAmALLVQQSTSFVDIaldmdDGDGSFF.W
  615-  662 (74.71/50.75)	DCAGVDLVDPLSAEVSESSMIGLLQS.DIKSALKTAFANM.....DGPLSVIdW
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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 MDP15108 with Med13 domain of Kingdom Viridiplantae
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