<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 MDP30561

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMVENSRLHFCISYSDCLFPSSLQGELQAVSWFQFFPCEADSNSLSEKRLKAEQKDAATHLVLSAHLQLQNEGFLSTWTNSFVGPWDPSQGAHNPDEKIKLWLFLPGRHSSVVETAHAAISRLRVVGSGIWLAPGDSEEVGVALAQALRNSLERSLRELSYVRFGDVFTRCHPLTSNVRRPQPTIEFTFAATEEAIYVHAVVSAKHIRGLCSSDMEKLLWHCSSHSIRDGIPAIVAPTGMRGRLTGCCPSDLVKQVYSSKLKGSNGIAIGMPSHMVQSSNCQLRGQRCYVEVTFDCHSDIVMGSNNKQNTNESHVHNEEPHLIAVGKVQKKHGVDHLPVLERTFIYPAEAVVIPMMHRAFARSFNKSLWLQNWVGTSLSEMWPLWNFSDSSQPELCLALGDAFISDPFNGLGVEFNGMRLQKQYNSSSNSISSSISSISRTSSESEHATAVGAGDLEADADSLTCRQSGLSSNDQFENDGPRKVSKRPRTGATDTCVQTGTVLSATIQDAFMSDYSIAEVDNSGAAGAQNTQVGSHWDWDGDDRGIGMDIQTLLSEFGGFGDFFEDDILAFGEPPGTAESQALIFPAAEFGDVTGSPCNGVMEVSEQNICHAGLASLEGFNHQTVIHTEETTETKSDIPKDTRLSSHAESGHSTGKFDYLTKAEAMMTFAPEYAPVETPNSEFSTSIFRSPYVPRSKMVESSSSSSSAYMYNAMPPPCIESSEEKSDKPTKLTLCELGHEGISSVKSSKLYTHVACGIEKKNNRSVNSDVTSNNGEGLSSICGVKSMNAALTFQKKGEHMLESAGFLMPVKTVLATDIECMMYQTAMCKVRHTLLSLRNKVSMGLRNAMSDLVQSDSSVKSDIMTVKHELRKKDSIPVRLAGDIDGGMQDGTFTTPVGVWRSVGAPKATKPTRVCENLPSMPLNNLSDEGINFHGQRQPLQDLLDAIAFLVQQSTSFVDFSLDTNDGYGAYYWLGIQEQRRREFACGPSMIHAGCGGLISTCHSLDIAGVDLIDPLSADVQASSVMSLLQSDIKVALKSAFGNLDGPLSVIDWCRGCSHFVDSGTPGDGNEPRDSSGAFSLVGEPISPPQSTGGSSSTRGTSGYPYKRLNQETCNLEAEQQKGFSRFRPTIMVLPLPAILVGYQDDWLKTSVNSLRLWEKAPLEPYASPKPVTYYALCPDIELLTSAAVDFFQQLGTVYEICKLGSHTPHYSGGQMELPTGACMSSGLVLVDCPQQVKVSRNHVNIVSSIRDFFLSLSKSWSPKSFIRSLTKVIKDLKLASSFSVNQKECSSGPCTVVYVVCPFPEPKAILQTLVECSSALGSVVLSQDKERRSLLYSQVAKALNCTAAVDEASASNVLMLSGFSVPKLVLQIITVETLLRIYRPSSELAILKDIAFTVYNKARRIPRAVSSSDMFQNSSFSGRSQSGLMHMTSSIPGLSKDCLVPRMSGPSLSREGEIDAALRPGPWDSSWQTSRIGGLSCEQNRSADLCGLDDARFMFEPLFILAEPGTLEHGSSPIVFGSSVLESSSLKFVDDTGGIYMQSSTSGGAAEIGTASVVDGSEHDNKAPSLHCTYGWTEDWRWLVCIWTDSRGELLDSCIFPFGGISSRQDTKVLQTIFVQILQQGCQISSSCSDAGLVRPRDMIITRFGCFFELECQEWQNAIYSFGGNDIKKWPLQLRRSTPDGVTSSNNGSSLQQHDLVMIQERNLPSSPSPSLYSPHSKSSFTKSGMGQPNSKKQILVGQTGVDSSRSSLQLVQSISLVGVSIDHSLHLILQADMSSSGGTQSSSSSSVTSYVEGFSPLKSLGLMQASYLLIPSPNMRCLPPLPLHLPTCLTSESPPLAHLLHSKGSAIPLATGYIVSKTVPPMGQDLGEPTREDWPSVLSVSLIDHYGGNNSNIQERMIRGAGSSNAVKQVRNVNPESVNKDYELETHIVLESIAAELHSLSWMTVSPVYLERRTALPVHCDMLLRLRRLLHYADKELIRLPENVL
Length1990
PositionKinase
OrganismMusa acuminata subsp. malaccensis (Wild banana) (Musa malaccensis)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Zingiberales> Musaceae> Musa.
Aromaticity0.07
Grand average of hydropathy-0.209
Instability index54.24
Isoelectric point5.73
Molecular weight216680.46
Publications
PubMed=22801500

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

>MDP30561
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     196.07|      61|     107|     931|    1001|       1
---------------------------------------------------------------------------
  931- 1001 (96.86/71.28)	NFHGqrqPLqDLLDaiafLVQQSTSFVDFSL..DTN...DGYGAYYWLGiqEQRRREFACGPSMIHAGCGGL......ISTC
 1042- 1113 (99.21/50.60)	NLDG...PL.SVID....WCRGCSHFVDSGTpgDGNeprDSSGAFSLVG..EPISPPQSTGGSSSTRGTSGYpykrlnQETC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.69|      45|     112|     742|     788|       2
---------------------------------------------------------------------------
  742-  788 (68.70/56.67)	SSVKSSkLYThVACGIEKKNNRSV..NSDVTSNNGEG.LSSICGV.KSMNA
  856-  904 (64.99/43.36)	SSVKSD.IMT.VKHELRKKDSIPVrlAGDIDGGMQDGtFTTPVGVwRSVGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.37|      19|     112|    1409|    1437|       3
---------------------------------------------------------------------------
  376-  394 (38.01/15.31)	SLSEMWPLWNFSDSSQPEL
 1410- 1428 (34.36/30.24)	SSSDMFQNSSFSGRSQSGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.72|      51|     334|    1162|    1219|       4
---------------------------------------------------------------------------
 1162- 1219 (82.36/77.26)	LEP.YASPKPVTY.YALCPDI...ELLTSAAVDFFQQLGTVYeickLGSHTphySGGQMELPT
 1499- 1554 (75.37/50.63)	FEPlFILAEPGTLeHGSSPIVfgsSVLESSSLKFVDDTGGIY....MQSST...SGGAAEIGT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.28|      10|      57|    1685|    1696|       5
---------------------------------------------------------------------------
 1685- 1696 (14.17/16.36)	GVTSSNngSSLQ
 1745- 1754 (19.11/11.77)	GVDSSR..SSLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.29|      33|     266|     406|     438|       9
---------------------------------------------------------------------------
  406-  438 (57.08/29.42)	PFNGLGVEFNGMRLQKQYNSSSNSISSSISSIS
  674-  706 (55.21/28.20)	PVETPNSEFSTSIFRSPYVPRSKMVESSSSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.04|      29|     336|     213|     299|      10
---------------------------------------------------------------------------
  220-  248 (56.88/117.68)	HCSSHSIRDGIPAIVAPTGMRGRLTGCC..P
 1571- 1601 (57.16/10.33)	HCTYGWTEDWRWLVCIWTDSRGELLDSCifP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     224.35|      75|     124|    1708|    1801|      16
---------------------------------------------------------------------------
 1708- 1801 (113.44/90.91)	LP...SSPSPSL.YSPHSKSSFTKSGMGQPNSKKQILVGQTgvdssrsslqLVQSISLvgvsIDH..SLHLILQADMSSSGGtqsssSSSVTSYVEGFSP
 1830- 1920 (110.91/69.91)	LPtclTSESPPLaHLLHSKGSAIPLATGYIVSKTVPPMGQDlgeptredwpSVLSVSL....IDHygGNNSNIQERMIRGAG.....SSNAVKQVRNVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.85|      17|     423|      58|      77|      18
---------------------------------------------------------------------------
   58-   77 (27.01/26.20)	THLVLSAHLQlqnEGFLSTW
  498-  514 (30.84/20.13)	TGTVLSATIQ...DAFMSDY
---------------------------------------------------------------------------




































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 MDP30561 with Med13 domain of Kingdom Viridiplantae
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