<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 MDP00840

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDVRMHPLVRNLTHQHLLQAQTSSSGIPVILAPFGLAGTLTGQAYKTMDVQTKRQLDEWRHFYPIDTKFSSCEAGSEEVLLPLAVEVVVGGVKMRYPTCYVLVTDMDDPAASPSSAVRQGAVSPTGTAVAVMKTVGLPPSSAAVVTPPCSPCPQSITARSRPPCPSSPFPAAASGHHPASMQHSPTPATRLPEHVWQDSTLNPTQHDSTEQNGVGSDGIPSQLPQAGQWDFTRKSTCSCSKYKKGAGAKHMAQNKGGVNSIGGVKTVKGEKNEKGTRGSGRGGTMPFHRRSPLAEEGAWTVEVAGPLSRVMGGLGTPPGGLPSYPHCQSMTPNPLPNLHGGESVPVPSVGSPASAAPSPLPNPHSQPASVPPADQTMPTLSPHPPPSNSGAGQPQPATPLESQDKVTPSDLNGPKSVSSVSNQVFSPYPATSSVEPVSKPVDSVSGGSQGPASAHSVLASAPLCTTAPSDYLTLKRPVLSSKEYESFLLEEDQPSKLLYDYSTLDAWLNHPVKRFKPSETRSTDSMRPPYNRHSSPTDPYSYNLQQQIVASPPNNLNQPFIKQEIKQEPSCNIPMEVDSVHLNKRSDPYEFEDDMTAPAVSMEGFKRTNSIKEEDRKGGPGNAVGPFDPVTPNGPTNKPTSLYTNEGLQASYKDLDQIFDNSDDTSSDETLQVPTPPGSNKPAGLPEDSASNSVVVKPPRGSGGSTSLNSCGGTGILRPEELSKMFPTPPSLEHNPIASPCGHLSDGPLGELSDGPVGVCIPRCKQEIYPNMGSPQEENIDDWSYVFRLPAVCKFVGSSKYAPLTNLPSQSLPPVTLPSHFVYKPSWQTQYQHQQQQQQQQQQSVEKSASQQSLIPTGSGPNSRPNSVASNHHSSAVIPPHAHLPHPVLPPHPHSRAGLSPISPAAHFPPSPMTLAAMGGSGLPIHLQQQLRSGGPGSVGGVRTPCPAPPPYELPSPATSTASSYLNKNLNSVEPAPTPVMARAPEGNSLVVNILLCDTALNIFRDHNFDSCTLCVCNAGPKVVGNIRGADAGIYLPTPPPQSQSALPFPPTSPFPGMGMNGPAPSYVMGSSPGHHGVAPSVMAMVTEEDPIRCSCGFSAVVNRRLSHRSGLFYEDELEITGIAEDPGDRRKGSLLAYLLPNTSKSGQENLTAGDLVDLVPQNVMELLKEQCVIIQSSSNSLYRASRQFRGNLGPDVPYGTTVNALEFMDGNDVTHVALEQGRQALLESTTVAMCKVEEMQQRQQQIMQHGGRSSNTPCVHRWPYLRAMGPQCNQDIVWVMKSLRPLLQEVIHKKCTTRLWDAPYTVKGPLTWRQFHRLAGRGTDDRCEPQPIPSLMVGHEKDWLSLSPYAIQYWEKLLLEPYSYARDVAYIVVAPDNDYILQRVRTFFRELSATYEVCRLGRHCPITKVLRDGILRVGKTAAVKLAKEPVDEWFTMLGDNPTTNMLKLYAQVCRHHLAPHLSQVPLDKTLLDPPEGSQPLRVAVDRPLPSPMPPPSTPESNQGQIPDKAPSTPKSDHDGEGSLSSRDPLSSGQSSGGSDSSHDEDDQEPPALVVYLVDPFTIGSDSTDLQRLACLGLLRCFTTVLSAVPESIRNNISVQLISLESIMELGKSRDRIRQNDHMRAQAFSVFSQCRRLLTHTSNIKALTGFGTAAMADMFLKSKDEKNRAPYRLYTPLYVLAPVKEKTESGESFGQCGSEQCSVLYVSYCLSEDQRWLLAVATDERGEIFETATINIDIPNRSRRKKASARRIGLQKLMDFIVGVMSQSVRPWRLVVGRIGRIGHGELKGWSWLLSRKSLLKASKHLKEICEQCNLMYPNDVPCVLSACLVSLEPDSALRLMPDQFTPDERFSQTAVNCQLSTPHDVSCTHILVFPTSATSQSSQTAFQEQHINDPELGDDELFSALNDDMPEGIEGMQDFNDIFSWPETGPGGAQSPTGSPRRGDSPSQPGSPSCGVGGTSDQHSPFPCNASSRGGGGLGVDTQEEVGTLHQQPLALGYFVSTAPTGRMPKWFWASCPHLENVCPAFLKNALHLHSPAIQQNSDDLLQQQSAVTVHPLDSQYTTDVLRYVLEGYNALSWLALDSNTRDRLSCLPVHIQALMQLYHMTSALV
Length2111
PositionMiddle
OrganismZootermopsis nevadensis (Dampwood termite)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Polyneoptera> Dictyoptera> Blattodea> Blattoidea> Termitoidae> Termopsidae> Zootermopsis.
Aromaticity0.06
Grand average of hydropathy-0.439
Instability index60.34
Isoelectric point6.15
Molecular weight228395.90
Publications
PubMed=24845553

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP00840
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     151.55|      21|      23|     319|     339|       1
---------------------------------------------------------------------------
  306-  324 (31.78/10.58)	PLSRVMGGLGTP..PGG....LPSY
  325-  349 (35.05/12.68)	PHCQSMTPNPLPNLHGGesvpVPSV
  350-  371 (26.33/ 7.08)	GSPASAAPSPLPNPPAS....VP..
 1039- 1058 (32.33/10.93)	PPPQSQSALPFP.PTSP....FPGM
 1488- 1498 (26.05/ 6.90)	PLP.....SPMPP.........PST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      96.25|      19|      23|     414|     432|       2
---------------------------------------------------------------------------
  148-  162 (23.43/ 7.36)	PCS.PC...P..Q...SI.TARSRP
  408-  426 (27.49/10.52)	PSDLNG...P..KSVSSV.SNQVFS
  427-  450 (23.03/ 7.04)	PYPATSsvePvsKPVDSV.SGGSQG
  856-  875 (22.31/ 6.48)	PTG.SG...PnsRP.NSVaSNHHSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.57|      36|      52|     674|     711|       3
---------------------------------------------------------------------------
  674-  699 (38.96/11.86)	............................PTPPG.SN..KPAGLPEDSASNSVVVKPP
  700-  753 (38.85/18.45)	RGSG.GsTSLNsCggtgilrpeelskmfPTPPSlEH..NPIASPCGHLSDGPLGELS
  936-  974 (53.77/20.13)	PGSVgG.VRTP.C...............PAPPP.YElpSPATSTASSYLNKNLNSVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.93|      11|      16|     167|     177|       5
---------------------------------------------------------------------------
  167-  177 (22.11/ 9.31)	SPFPAAASGHH
  184-  194 (21.82/ 9.09)	SPTPATRLPEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     217.77|      49|     423|    1500|    1549|       8
---------------------------------------------------------------------------
  890-  929 (52.78/15.24)	.............PPHPHS.RAGLSPISP..aahfPPSPMTLAAMGGSGLPIHLQQ
 1500- 1549 (78.95/29.20)	ESNQGQiPDK..APSTPKSDHDGEGSLSSRD....PLSSGQSSGGSDSSHDEDDQE
 1935- 1985 (86.04/29.65)	QSPTGS.PRRgdSPSQPGSPSCGVGGTSDQH....SPFPCNASSRGGGGLGVDTQE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.34|      17|      25|     779|     803|       9
---------------------------------------------------------------------------
  779-  803 (24.11/25.24)	NIDDWSyvfrLPAV...CKFVgsskYAP
  806-  825 (29.23/11.72)	NLPSQS....LPPVtlpSHFV....YKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.40|      20|      24|      97|     117|      11
---------------------------------------------------------------------------
   97-  117 (32.10/24.85)	PTcYVLVTDMDDPAASPSS.AV
  124-  144 (31.30/17.68)	PT.GTAVAVMKTVGLPPSSaAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.83|      15|      16|     508|     522|      14
---------------------------------------------------------------------------
  508-  522 (26.93/12.70)	LNHPVKRF.KPSETRS
  526-  541 (24.90/11.12)	MRPPYNRHsSPTDPYS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     134.43|      42|     628|     451|     493|      15
---------------------------------------------------------------------------
  451-  493 (70.70/47.57)	PASAHsVLASAP.LCTTAPS..DYLTLKRPVLSSKEY..........ESFLLEEDQ
 1063- 1117 (63.73/38.12)	PAPSY.VMGSSPgHHGVAPSvmAMVTEEDPIRCSCGFsavvnrrlshRSGLFYEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.25|      11|      44|    1813|    1823|      23
---------------------------------------------------------------------------
 1813- 1823 (25.48/15.82)	CNLMYPNDVPC
 1858- 1868 (23.76/14.13)	CQLSTPHDVSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.99|      10|     427|     393|     404|      25
---------------------------------------------------------------------------
  375-  384 (19.50/ 6.45)	QTMPT..LSPHP
  393-  404 (13.50/ 8.74)	QPQPAtpLESQD
---------------------------------------------------------------------------




































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 MDP00840 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AKHMAQNKGGVNSIGGVKTVKGEKNEKGTRGSGRGGTMPFHRRSPLAEEGAWTVEVAGPLSRVMGGLGTPPGGLPSYPHCQSMTPNPLPNLHGGESVPVPSVGSPASAAPSPLPNPHSQPASVPPADQTMPTLSPHPPPSNSGAGQPQPATPLESQDKVTPSDLNGPKSVSSVSNQVFSPYPATSSVEPVSKPVDSVSGGSQGPASAHSVLASA
2) QSITARSRPPCPSSPFPAAASGHHPASMQHSPTPATRLPEHVWQDSTLNPTQHDSTEQNGVGSDGIPSQLPQAG
3) QVPLDKTLLDPPEGSQPLRVAVDRPLPSPMPPPSTPESNQGQIPDKAPSTPKSDHDGEGSLSSRDPLSSGQSSGGSDSSHDEDDQEPP
4) RPEELSKMFPTPPSLEHNPIASPCGHLSDGPL
5) SPPNNLNQPFIKQEIKQEPSCNIPMEVDSVHLNKRSDPYEFEDDMTAPAVSMEGFKRTNSIKEEDRKGGPGNAVGPFDPVTPNGPTNKPTSLYTNEGLQASYKDLDQIFDNSDDTSSDETLQVPTPPGSNKPAGLPEDSASNSVVVKPPRGSGGSTSLNSCGGT
6) SSQTAFQEQHINDPELGDDELFSALNDDMPEGIEGMQDFNDIFSWPETGPGGAQSPTGSPRRGDSPSQPGSPSCGVGGTSDQHSPFPCNASSRGGGGLGVDTQEEVG
7) SWQTQYQHQQQQQQQQQQSVEKSASQQSLIPTGSGPNSRPNSVASNHHSSAVIPPHAHLPHPVLPPHPHSRAGLSPISPAAHFPPSPMTLAAMGGSGLPIHLQQQLRSGGPGSVGGVRTPCPAPPPYELPSPATST
8) VKRFKPSETRSTDSMRPPYNRHSSPTDPYSYNLQQQIV
248
154
1464
718
551
1882
826
512
461
227
1551
749
714
1988
961
549










Molecular Recognition Features






MoRF SequenceStartStop




1) KLLYDY
496
501