<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 MDP24069

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTQPAVAKLRVVSSGLWVAPGNSEEVAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHSPRSVGEGLPVIVAPSGMLGRLVGCCPSDLAIQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKEEFDSVKEPHVGDYGQKKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEDSSHAGKEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQGDELDFGEPPGTAESHALVSPASEYGDMPFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKESIPARLSSDVDHDMYDRSQLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHLPQHSGGQIEHSPGKYLPSGLVLVECPDQLKTRGSHSVSISSVTEYFQALSKSWSVKSFVSSLARIIKDIKLTVNISTNQKESSNIPCTVIYVVCPFPEPSAVLQALVESSVALGSILSSERERKSFLYTQVAKALDSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAAFKDIAFTVYNKARRIPRFVSMSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAVGLPDPSKIPELCAQDDRKYAFEPLFILAEPGTADYSDMMESSRFGADASSSRAYSSISGGTDSGASPPLEGSENDSATSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLMATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPMCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKNAAQLTKEDRHSVLSVSIIDYYGGSTPTVQEKMSRGVGGSTMSKQARNITHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYPERRSALPFHCDMVLRLRRLLHYADRHLSQLTEKGDLA
Length1808
PositionKinase
OrganismAegilops tauschii subsp. strangulata (Goatgrass)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Triticinae> Aegilops.
Aromaticity0.07
Grand average of hydropathy-0.287
Instability index60.53
Isoelectric point5.85
Molecular weight196901.69
Publications
PubMed=25035499
PubMed=29158546

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

>MDP24069
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.59|      22|      54|     239|     260|       1
---------------------------------------------------------------------------
  239-  260 (42.52/26.93)	VHQAFVRFSSKRMWSQDWMGSS
  290-  311 (38.08/23.31)	VNSNFLRLRRQRNNNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     167.59|      52|      54|     402|     454|       2
---------------------------------------------------------------------------
  402-  454 (88.50/65.55)	MDI.NILLSEFGdFSDF..FQGDELDFGEPPGTAESHALVSPASEYGDMPFIDSPS
  457-  511 (79.09/53.05)	MDIpEQRLSPVG.FTSMeaFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     271.86|      89|     123|    1138|    1260|       3
---------------------------------------------------------------------------
 1138- 1256 (114.89/101.89)	PSAVLQALVESsvALGSILSSERErksFLYTQVAKALDSSASADEAsasnVVMLSGFSIPKLVLQ...IVTVETLLRLHKPNeLAAFkdiaftvynkarriprfvsmSDMFQSPTYMSRPQS
 1266- 1357 (156.97/71.63)	PTLWKECLVPR..MSGQTLSRETE...FDASMRSVSWDNSWQPGRA....VGLPDPSKIPELCAQddrKYAFEPLFILAEPG.TADY....................SDMMESSRFGADASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.66|      36|      49|     955|     993|       4
---------------------------------------------------------------------------
  955-  993 (59.34/56.23)	YHRVRPTIAVLPSPSLLVGYQddwLKTSANCLKLWEKAP
 1005- 1040 (66.31/50.79)	YYALCPDIDMLTSAATDFFMQ...LGTIYEVCKLGTHLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     263.10|      82|     125|    1492|    1575|       5
---------------------------------------------------------------------------
 1492- 1575 (135.26/80.84)	PVQLRRSIPDG...IPSNSN...GPTLQQQDMGLIQDRnmPSSPSTLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLV
 1617- 1704 (127.84/70.71)	PVKSIGSMSASyllVPSPSMrylSPATLQLPMCLTSES..PPLAHLLHSKGTATPLAMGYVVSKAVPPVRKNAAQLTKEDRHSVLSVSII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.47|      23|     125|      42|      66|       6
---------------------------------------------------------------------------
   42-   66 (38.51/31.87)	LRGLSYarFGDVFTKYNPPTRNQNS
  165-  187 (40.96/26.95)	LRGQSY..YVEVALGFPPASTDKIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.83|      21|     125|     916|     946|       7
---------------------------------------------------------------------------
  923-  944 (37.39/39.27)	RDTSnSIPIGGDA.MSPP..QSSND
 1359- 1382 (31.44/ 6.51)	RAYS.SISGGTDSgASPPleGSEND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.80|      17|     125|     558|     578|       9
---------------------------------------------------------------------------
  558-  577 (25.96/23.26)	CGFSSrvySYDVTQSSKVES
  597-  613 (29.84/12.80)	VGRSS...LYTLVQGRKNES
---------------------------------------------------------------------------




































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 MDP24069 with Med13 domain of Kingdom Viridiplantae
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