<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 MDP28497

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKADQKDAAMLVVLSSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHLTVSETAQPALTGLRAVASGLWLAPGDSEEVAAALSQALRNCIERALLGLYYMRFGDVFLKVHQFQSEELLRRGHPAFEFVFAATEEAILIHVIVSSKNIRMLSSGDLEKLLKHSMETTYTLPVIVSPHGIRGNLTGCSSSDLVKQSYFSSAKFRVSNGIIGLPYHVSQGVGCQLRGQNCFVEVSLGFPRSETDKALQSNKNIRNLLKSPVTGHNDGKGSPDHLSDNEKTFLYPAEAVLVPVFQTSLARSSLRRFWLQNWMGPSLAGSSSFIHCAGNVESTEDPWAEYNGSRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTGPSELEADADSLACRQSMISSADRLGSDAKSGSKRSRTGLVQSLSTTTNIPGQDAYMSDFGSMEVNNSAITRVGNEPTGSYWDWDDNDEENRGMELNMEALLKEFGRGFDDFFVGDELPFGEPPGTAESQALMVYAPDCGDVNSSPVGADVMDVSDQMILPIGFSSFESFNPTSPAVMEECLNKDQDNLNNSMSTGQTNQTQMLYTGEFDHIMKAEAMITFAPEFGAVEAPTSGLSTTLFRSPYFPKFQKAESSNSCSNNYLYGAEPPSSPYIEGSEGKNGMVINTKTCSGKHDTSMTLHSKNYYTFVESRKDMNEKKPVTCIANNIAKSEGIVQPPFSSVGSNVSVKSVLRKMTEDPKDAERFTPLSAKTLLATDVTCAMLQASMCRLRHTLLSSGNNLVPVGLNRSTGVTFSNQLPTDPSTTTDNISGKYEVKKKENIPVRIAGDFDGGMLDGHLNAPVGVWRSVGTSKVVKPSNSPNMEVGPSFSHNSFNEEGILSYAQRKPLQELLDGIALLVQQATSFVDLALDADCGDGPYGLLALQEQWRRGFCCGPSMVHAGCGGTLASSHSLDIAGLELVDPLSSDVHASTVISLLQSDIKTALKSAFTNLEGPLSVTDWCKGRSQLVDPGSMVDGVSAESSISECRDSSEPLSPSQSSVCGSSSFKVSSLTGQDMCNSESEQQPCSRLKPTLIAVPFPSILVGYQDDWLKASANCMQHWEKAPLEPYALQKPIAYHVVCPDIDPLTSAAADFFQQLGTVYEMCKLGTHSPLVLGNQMETESAKLSSCGFVLLDCPQSMKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRALNLSSCFSANPTEGSNSSCLVIYVVCPFPDPSAILQTIIESSVAIGSVIQQSDRERRSNLHSQVVKALSGLATVDEASASNIPVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDSAQLAFSSRSQSVLPQMPSPISGMWKDCGGPRMAGHSLPRDGDIDTSLRPGNWDNSWQPTRSGVLNCDPSRTGDIFLHDEIRYMFEPLFILAEPGSPEHGISVVGSPGSEASKALADDSSGNHVQSTSTSGSVDSASSIDGSGSDQKTHPSLHCCYGWTEDWRWLVCIWTDSRGELLDSNIFPFGGISSRQDTKGLQCLFVQVLQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGGSEMKRWPLQLRKSLSDGVSSTSNGSSLQQPDMSLIPERTLPSSPSPLYSPHPKPTGFIKGNLGQSAGRKQMMGGHSTVDNSRGLLHWAQSISFVAVSMDHTLQPVLPADSSSPGYVEGFTPVKSLGSASSAYILIPSPSMRFLPPTALQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKTVASMRKDYRSNLKEEWPSVLSVSLIDYYGGSSIPQEKNVRGINKQGGRSLNWEAKDFETETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSDKS
Length1942
PositionKinase
OrganismMedicago truncatula (Barrel medic) (Medicago tribuloides)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> Hologalegina> IRL clade> Trifolieae> Medicago.
Aromaticity0.07
Grand average of hydropathy-0.246
Instability index53.85
Isoelectric point5.43
Molecular weight210533.67
Publications
PubMed=22089132
PubMed=24767513
PubMed=30397259

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28497
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.33|      17|      57|       2|      58|       1
---------------------------------------------------------------------------
    2-   25 (24.41/35.65)	WTNVFkIGslhqiSW..FQFLpHEPD
   62-   80 (34.91/36.49)	WTNSF.VG.....PWdpSQGL.HNPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     179.49|      50|      57|     991|    1047|       2
---------------------------------------------------------------------------
  357-  379 (28.96/ 7.97)	.......................SLAGS..SSF..IHCAG........NVESTE.DPWA
  991- 1047 (66.47/41.33)	GLELVDPLSSDVHASTVISLLQSDIKTAlkSAF..TNLEGplsvTDWCKGRSQLvDPGS
 1051- 1102 (84.07/36.60)	GVSAESSISECRDSSEPLSPSQSSVCGS..SSFkvSSLTG....QDMCNSESEQ.QPCS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     197.04|      49|      56|    1651|    1700|       4
---------------------------------------------------------------------------
 1651- 1700 (84.23/42.21)	RKSLSDGVSSTSNGSS....LQQ..PDMSLIP...ERTL.PSSPSPLYSPHPkPTGFI...KG
 1708- 1758 (61.83/26.59)	RKQMMGGHSTVDNSRG....LLHwaQSISFVAvsmDHTLqPVLPADSSSP.....GYV...EG
 1762- 1809 (50.98/20.62)	.......VKSLGSASSayilIPS..PSMRFLP...PTAL..QLPTCLTAESP.PLAHLlhsKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.73|      29|      29|     477|     505|       5
---------------------------------------------------------------------------
  477-  505 (53.85/24.62)	G.........SMEVNNSAITRVGNEPTGS.YWDWDDNDE
  509-  533 (41.07/17.35)	G..........MELNMEALLK...EFGRG.FDDFFVGDE
  537-  573 (26.80/ 9.23)	GeppgtaesqALMVYAPDCGDVNSSPVGAdVMDVSDQ..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     115.87|      38|     102|    1117|    1202|       6
---------------------------------------------------------------------------
 1117- 1160 (65.76/110.70)	LVGYQDDWLKASANcmqHWEkapLEPY..ALQKPI.AY.....................HVVCPDIDP
 1223- 1284 (50.11/12.44)	LVGSVSDYFLSLSN...GWD...LTSYlkSLSKALrALnlsscfsanptegsnssclviYVVCPFPDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.55|      23|      56|     383|     405|       8
---------------------------------------------------------------------------
  383-  405 (37.48/20.06)	GSRTQNSYDSSSNSNS..SSISSLS
  418-  440 (21.74/ 8.09)	PSELEADADSLACRQSmiSSADR..
  442-  461 (29.33/13.86)	GSDAKS...GSKRSRT..GLVQSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.40|      19|      56|     713|     738|      10
---------------------------------------------------------------------------
  685-  705 (31.60/21.13)	SSPYIEGSEGKNGMviNTK...TC
  717-  738 (30.80/24.14)	SKNYYTFVESRKDM..NEKkpvTC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.89|      20|      56|     255|     284|      11
---------------------------------------------------------------------------
  230-  252 (29.75/28.34)	GCsssDLVKQSYFSSAKFRVSNG
  265-  284 (37.13/15.30)	GC...QLRGQNCFVEVSLGFPRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.42|      37|     421|    1381|    1449|      12
---------------------------------------------------------------------------
  855-  896 (56.96/14.80)	NIPVRIAG...DFDGGMLDGHlNAPvgvwRSVGTSKVVKPSNSPN
 1407- 1446 (66.46/72.05)	QMPSPISGmwkDCGGPRMAGH.SLP....RDGDIDTSLRPGNWDN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.18|      19|      26|      85|     104|      17
---------------------------------------------------------------------------
   85-  104 (30.49/20.62)	LWLfLPGRHLTVSETAQPAL
  114-  132 (32.69/17.21)	LWL.APGDSEEVAAALSQAL
---------------------------------------------------------------------------




































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 MDP28497 with Med13 domain of Kingdom Viridiplantae
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