<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 MDP28813

Description Mediator of RNA polymerase II transcription subunit 13
SequenceEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGIQSAASHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPTISQPGFSAGPSSSSSLPPPASKHKATERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSGKWWHSYRLPPSDDAEFRPPELQGERCDGKMEVNSESTALQRLLAQPYKRFKIWQDKQPQMQPVHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFAANKKCKQGTEKDSLKKIKPEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYFTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLLMCQTTLLPQVEGAKKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSGEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTTPPATQGQATPGNAGPLAPNSGSAAPPAGSAFNPTSNGSSTNPAASSSASGSSVPPVSSSASAPSISQISTTSSSGFSGSVGGQNPSSGGSSADRTQGSLGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRTKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILITGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2050
PositionMiddle
OrganismOtolemur garnettii (Small-eared galago) (Garnett's greater bushbaby)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Strepsirrhini> Lorisiformes> Galagidae> Otolemur.
Aromaticity0.07
Grand average of hydropathy-0.393
Instability index59.42
Isoelectric point5.62
Molecular weight224165.83
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP28813
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     442.33|     107|     109|     618|     725|       1
---------------------------------------------------------------------------
  433-  536 (124.10/58.21)	TLDD.RTVLVGQRL..PLMAEV.SETA.....LYCGIRPSNPESSGKWWHSYRlPpsddaEFRPpeLQGERC.......DGKMEVNSE.STA..LQRLLAQPYKrfkiwQDKQPQMQPV.HF.LD.
  618-  725 (173.95/88.06)	TKTDvRQDNAAGRAGSSSLTQV.TDLAPSLHDLDNIFDNSDDDELGAVSPALR.S.....SKMP..TVGTED.RPLGK.DGRAAVPYP.PTVADLQRMFPTPPS.....LEQHPAFSPVMNY.KDG
  730-  836 (144.29/69.02)	TVT......ALGMMESPMVSMVsTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKvP.....TFQP..FVGSSMfAPLKMlPSHCLLPLKiPDACLFRPSWAIPPK.....IEQLP.MPPAATFiRDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     385.65|     109|    1265|     166|     303|       2
---------------------------------------------------------------------------
  166-  298 (171.62/128.40)	TPPTSPEQAVIGESGGIqsaASHLGSQDGGMITMHSPKRSGkippklhnhmvhrvwkecilNRTQSKRSqMSTPTLEEEP.ANNPATWDFVDPTQRVSCSCSRH...KLLKRCAVGP..SRPPTISQPGFSA.....GPSSSSS
  838-  907 (78.25/27.48)	.............................................................NNVPSVGS.LADPDYLNTPqMNTPVTLNSAAPA...SNSGAGVlpsPATPRFSVPT..PRTPRTPRTPRGG.....GTASG..
 1371- 1461 (135.77/61.63)	TPPATQGQATPGNAGPL...APNSGSAAPPAGSAFNPTSNG...............................................SSTNPAASSSASGSSV...PPVSSSASAPsiSQISTTSSSGFSGsvggqNPSSGGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.84|      22|      26|    1462|    1484|       3
---------------------------------------------------------------------------
 1462- 1484 (37.21/23.88)	SADrTQGSLG....CGGDTEPGQSSSQ
 1486- 1511 (34.63/17.38)	SQD.GQESVTererIGIPTEPDSADSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     170.91|      54|     626|    1289|    1349|       4
---------------------------------------------------------------------------
 1289- 1349 (77.29/70.44)	LGQHKPicKVLRDGIMRVGKTVAQKLTDELvSEWFnqpWSG.EENDNHSRLKLYAQVcRHHL
 1922- 1976 (93.62/57.55)	LSREAP..EELKQQPLALGYFVSTAKAENL.PQWF...WSScPQAQNQCPLFLKASL.HHHI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.08|      23|      26|    1580|    1605|       5
---------------------------------------------------------------------------
 1583- 1605 (45.78/33.09)	YIQYLKSM..AFSVYCQCR...RPLPTQ
 1607- 1634 (28.29/10.40)	HIKSLTGFgpAASIEMTLKnpeRPSPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.11|      26|      27|    1698|    1724|      10
---------------------------------------------------------------------------
 1698- 1724 (42.38/35.76)	IALPNRSRRTkVSAR..KIGLQKLWEWCI
 1727- 1754 (42.73/30.59)	VQMTSLPWRV.VIGRlgRLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.12|      20|      24|    1811|    1830|      11
---------------------------------------------------------------------------
 1811- 1830 (33.45/15.72)	VFGRSTALNMQSSQLNTPQD
 1836- 1855 (33.67/15.86)	ILVFPTSSTIQVAPANYPNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.86|      19|      25|    1537|    1556|      12
---------------------------------------------------------------------------
 1537- 1556 (31.05/23.49)	NFWLLSLMRCyTEMLDNLPE
 1560- 1578 (34.81/20.86)	NSFILQIVPC.QYMLQTMKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.34|      26|     341|      43|      70|      13
---------------------------------------------------------------------------
   43-   70 (44.76/25.15)	SP.APFQVLvsPYGLNGTLTGQAYKMSDP
  386-  412 (45.58/20.67)	SPhSPISPL..PPTLSPQPRGQETESLDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.64|      16|      25|    1870|    1889|      14
---------------------------------------------------------------------------
 1870- 1889 (22.66/23.45)	PFPDDmDNDIGIlitGN..LHS
 1897- 1914 (26.99/13.40)	PSPGS.PSGIGV...GShfQHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.66|      27|    1153|      79|     105|      15
---------------------------------------------------------------------------
   79-  105 (51.52/31.90)	WQYFYPMVLKKKEELKEEEE........LGYDDDF
 1198- 1232 (46.14/27.79)	WQQFHKMAGRGTYGSEESPEplpiptllVGYDKDF
---------------------------------------------------------------------------




































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 MDP28813 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CAVGPSRPPTISQPGFSAGPSSSSSLPPPASKHKATERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLEL
2) ECILNRTQSKRSQMSTPTLEEEPANNPATWDFV
3) IPPKYQTTPPATQGQATPGNAGPLAPNSGSAAPPAGSAFNPTSNGSSTNPAASSSASGSSVPPVSSSASAPSISQISTTSSSGFSGSVGGQNPSSGGSSADRTQGSLGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSA
4) ITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGIQSAASHLGSQDGGMITMHSPKRSGKIPPKLH
5) NLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
6) PSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVP
7) TEKDSLKKIKPEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTD
8) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPAT
274
223
1364
145
1886
644
576
843
428
255
1508
213
1928
692
641
938










Molecular Recognition Features






MoRF SequenceStartStop




1) LKKIK
2) YKRFKIW
581
516
585
522