<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 MDP14935

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAGMRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPGTVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKEFDSGKDPHLGDDGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMSSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPSIAMDIPEQRLSPVGFTSMEAFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKETIPARLSSDVDHDMYDRSLLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDIDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAESDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTSGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSADCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIDQSPGKYLPSGLVLVDCPDQLKTSGSHSVSISSVTEYFQALSKSWSVKSFISSLARIIKDIKLTLNISTNQKESSNMPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSVPKFVLQIVTVETLLRLHKPNELAAFKDIAFTIYNKARRIPRFVSTSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLVFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRMNAAQLTKEDRHSVLSVSIVDYYGGGTATVQEKMSRGVGGSTTSKQARNISHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYTERRSALPFHCDMVLRLRRLLHYADRHLSQLTVKGEM
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-0.295
Instability index58.77
Isoelectric point5.64
Molecular weight188306.67
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

>MDP14935
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     277.99|     115|     279|     886|    1009|       2
---------------------------------------------------------------------------
  886-  953 (78.81/43.74)	.....................................................................................................................................................................................................................TIAVLPSPSLLVGYQDDWLKTSADCLKLWeKAPLEPYASAKPVTYYALCpDIDMlTSAATDFFMQLGT
  959- 1009 (55.69/30.40)	KLGTHSPQHSGGQIDQSPGKYLPSGLVL......VDCPDQLKTSgSHSVSISSVTEY................................................................................................................................................................................................................................
 1166- 1230 (97.36/43.37)	.........................................................fqalskswsvksfisslariikdikltlnistnqkessnmpctvvyvvcpfpepsavlqtlvessvalgsilssererksflytqvakalnssasadeasasnvvmlsgfsvpkfvlqivtvetllrlhkpnelaafkdiaftiynkarriprfvsTSDMFQSPTYMSRPQSTMMHTASPGPTLW.KECLVPRMSGQTLSRETEF.DASM.RSVSWDNSWQPGR
 1231- 1286 (46.13/13.39)	AAGLPDPSKIPELCAQDDRKYAFEPLFIlaepgaVDYNDTMESS.RFGVDASSSRAY................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     239.01|      77|     397|      58|     150|       3
---------------------------------------------------------------------------
   58-  150 (114.90/93.33)	TVAPSGMLGRLVGC.CPSDLarqvysskLSAPNLPGFTQPTICQLRGQSYYVEValgfppASTDKIsESENNQIKKEfDSGKDPHLGDD.GQQKL
  460-  538 (124.11/66.79)	TFAPEYAAVEISSCeTPATL........FTNPYLPGSKKRGSCGFSSRVYSYDV......TQSSKV.ESAGDKSEKS.DKLTPANLSRDvGRSSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     238.68|      73|     397|     339|     450|       4
---------------------------------------------------------------------------
  365-  440 (120.56/107.03)	PGTAESHALVTPASEFGDMpfiDSPSIAMDIPEQRLSPVGFTSM.EAFN.HETMSPIQDVASKVQEPLKEIASPAGSQ
  794-  868 (118.12/47.50)	PLSAESDIKSALKTAFANM...DGPLSVIDWCRGRSNIAESAAMgDAYSfHYTSGDIRDTSNSIPIGGDAMSPPQSSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.10|      22|      48|     175|     196|      11
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  175-  196 (42.05/27.22)	VHQAFVRFSSKRMWSQDWMSSS
  226-  247 (38.05/23.88)	VNSNFLRLRRQRNNNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.95|      34|     984|     301|     334|      12
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  301-  334 (63.61/33.57)	SEITEVSSHAGNEVRENMQGTNGQG.GCSWGWGEE
 1287- 1321 (58.33/30.17)	SSISGGSDSGASPLLEGSENDSGTSlHCCYGWTED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.93|      12|      15|    1490|    1501|      14
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 1490- 1501 (19.65/13.51)	SLHLVRSISLVA
 1507- 1518 (21.28/15.34)	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 MDP14935 with Med13 domain of Kingdom Viridiplantae
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