<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 MDP28919

Description Mediator of RNA polymerase II transcription subunit 13
SequenceHCSCCTLSGEHLLNCKSFTFILNSNAELTGIKWRCYSFRSGGEFGPLISAPAQDDPVLRSFMRCVHANLLCVWRRKIKPDAKELWIFWWGEEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKGFVRIGKWFFKPHDLEEKSLGNSEHLSCCFSFFLHGESNVCTSVEIVQHQAAYHITDHHIRLAQTSTTPVQVVLSPYSLSGTLTGQAYKMSDPAVRKLIEEWSYFYPMVYPQKEGSGEKEKGEAGQACDRCSHVAVEVIVGGVRMTYPAAFVLITQGDLPVEQPPVSVAQGLTKEPNNCSVPLTPPTSPEQPCSGKKKKKENPDMNISPRKKQFSALTTELTQRKEAPNGVTTWNFNDLGSRTPCSCSRLKQQKFNMAITSATNTQTISSSTQSSGPSLYPPSLPKHKTSDKTEKTDKQSKKPSVIPFHHRLTVTQDGPLEQDSPGGPQMGGIVALDPPMETLASLPTCKYSKPMSNGRKPPESLLHSPMSPLPPTLSPHPRMQDPEGLDVPLDATVCPDGGSGVGAITSETAVYTDLLRQRENGVTLGLFEQPGVEVLRENGEDPYDFKEGDIEYTFSSSKRLKGPGREPSKKAKIKTFYFYNHFEICFYIIPHFPLSCLCVCLILAVADLQRMFPTPPSLEQHPAFSPITPHRDTPSLEPPVPSGVADHLPPLASFQLAECRMEMEESVASPGQDDIKAYVFLSFQPQICSSMFAPLSCLPSQNLPPSKIPDQCYYRPSWTLETFFDGTTASVNTTILPSPAMPQFSVPTPRTPRTPRGINAASSGQGSVKQDGTELSSPVSTPSTSLPLSSVEPLGRPGPSLPEAHSLYVVLLLSDSVLSVFKDRNFDSCCICACNMNVKGADVGVYIPDSTCEDQYRCMCGFSAIINRRLAHGTGLFLEDELDIFGRTSEVGQAAQRRLALCRRDPIMGDSRAKQPQEATPASPSVMIVLQEQCSHPISSLASLHLPLSCSCHGRKGALLQSWMSEKQWADESDACVECYNALMQGLQYVDNPTGGKVDLAVVRSSALHSWPHTNVVDMSMLSSQDMVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTVLVGYDRERDFLALSPLALPFWEKLLLEPYGGQRDVAYIVLCPNSPSLLTAARSFFLELSAVYETCRLGKHRPLAKVSRDGLLQVGEDVEPEKLEDLDVDRWLTGPWAGQQHTDNLLKLKLYAYTCKKQLGKKNPDTFLFCLFFCFYRLRTDIFLLCFRSPAVNPDFGQQPSVASQSPVSGAVNASNASTPTGATGLTGEATQAASSSSKGLPSATPSANSTAEHPEMLTSNLFFFSSCDQSRIGIPTLADSVDSHINPPAVVIYIVDAFLSSAMTRNDGGEEEEGEEVELTSIWLLGLLRCYTEMLRTLPEKIRPAVVLQVVPCQYLLQPASGESHLYMQHLRSLAFSCYSQSRRLLRQQTHIKSLTGFGPVSSVGSVLKSPEHPSPLQLYSPPFILGPNRPKQPEPGEVWAELSPKYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRTRRPKVSPRKMGLQKLWDWCIGIIQMTSQPWRIVIGRLGRLGHGELKDWSSLLGEHSLHSIGRQLREACRMCGISAADSPSILSACLVAMEPQGSFVIMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNNGNDMFDLPFPDELENDIGHDMMLITGNLHSSPNPSPVPSPGSLEMGSHFQHTRRLLSRDNPPEELKQQPLALGYYVSTAQANGIPHWFWASCPQAESQCPLFLKASLHHHISIAQSEEIVSDKTKRAPHPLDSKTTSDVLRFVLEQYNALSWLTCTPATQDRQSCLPVHLAVLIQMYNAILNML
Length1928
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.08
Grand average of hydropathy-0.273
Instability index57.29
Isoelectric point6.06
Molecular weight212840.37
Publications
PubMed=17554307

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	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

>MDP28919
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     759.83|     157|     158|     676|     832|       1
---------------------------------------------------------------------------
  314-  432 (114.29/52.26)	.....................................................................PNNC..SVPLTPPTS..PEQpCSGKKKKKENPDMN..ISPRKKQFSALTTELT..QR.KE.APNGVT..TWNFNDLGSRTP..............C..SCSrLKQQkfNMAI.....TSATNT.QTISSSTQS.sgPSLYPPsLPKhKTSDKTE
  445-  584 (120.85/55.77)	PFHHRLTVTQDGPLEQD...........SPGGP.............QMG.GIV..ALDP..........PMETLAS..LPTCKYskPMS.NGRKPP...ESLLH..SPMSPLPPTLSPHPRMqdPEgLD.VPLDATvcPDGGSGVGAITSetavytdllrqrenGvtLGL.FEQP..GVEVlrengEDP..................................
  586-  691 (125.72/58.37)	...DFK..EGDIEYTFSSSkrlkgpgrePSKKA.............KIK.TFYFYN.HFEICFYIIPhfPLSCL.............CV.CLILAVADLQRMFP...TPPSLEQHPAFSPIT..PH............................................................................rdtPSLEPP.VPS.GVADHLP
  692-  844 (255.83/127.94)	PLASFQLAECRMEMEESVA.........SPGQD.............DIK.AYVFLSFQPQICSSMFA..PLSCLPSQNLPPSKI..PDQ.CYYRPSWTLETFFD..GTTASVNTTILPSPAM..PQ.FS.VPTPRT..PRTPRGINAASS..............G..QGS.VKQD..GTEL.....SSPVST.PSTSLPLSS..vEPLGRP.GPS......LP
  845-  991 (143.15/67.69)	EAHSLYVV...LLLSDSVL.........SVFKDrnfdsccicacnmNVKgADVGVYIPDSTCEDQY.....RCMCGFS...AII..NRR.LAHGTGLFLEDELDifGRTSEVGQAAQRRLAL..CR.RDpIMGDSR..AKQPQEATPASP..............S..VMI.VLQE....QC.....SHPISSlASLHLPLS......................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.20|      18|      21|    1463|    1482|       2
---------------------------------------------------------------------------
 1465- 1482 (34.28/26.48)	ESHLYMQ..HLRSL.AFSCYS
 1484- 1504 (22.92/ 8.11)	SRRLLRQqtHIKSLtGFGPVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.36|      14|      21|    1513|    1526|       3
---------------------------------------------------------------------------
 1513- 1526 (29.11/14.27)	PEHPSPLQLY...SPPF
 1533- 1549 (24.26/10.49)	PKQPEPGEVWaelSPKY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.44|      21|      21|     128|     148|       4
---------------------------------------------------------------------------
  100-  124 (28.16/14.16)	HHELE..VAEEGLWECGLSYecrtllF
  128-  148 (38.91/22.43)	HNLLERCLMDKGFVRIGKWF......F
  151-  171 (37.37/21.24)	HDLEEKSLGNSEHLSCCFSF......F
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.63|      19|      22|    1122|    1140|       5
---------------------------------------------------------------------------
 1122- 1140 (36.06/18.41)	SPEPLPI..PTVLVGYDRERD
 1145- 1165 (30.57/14.46)	SPLALPFweKLLLEPYGGQRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.11|      28|      28|    1581|    1608|       6
---------------------------------------------------------------------------
 1581- 1608 (51.77/25.58)	IINIDVPNRTRRPKVSP.RKMGLQKLWDW
 1610- 1638 (47.34/22.85)	IGIIQMTSQPWRIVIGRlGRLGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.16|      13|      17|    1256|    1271|       7
---------------------------------------------------------------------------
 1256- 1271 (20.75/19.39)	CKKQLgkkNPDTFLFC
 1275- 1287 (26.41/15.26)	CFYRL...RTDIFLLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.97|      13|      17|    1035|    1047|       8
---------------------------------------------------------------------------
 1035- 1047 (21.61/12.59)	PTGGKVDLAVVRS
 1054- 1066 (23.36/14.20)	PHTNVVDMSMLSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.31|       9|    1394|      27|      36|      10
---------------------------------------------------------------------------
   27-   36 (17.67/15.44)	ELTGIkW.....RCY
 1420- 1433 (15.64/ 7.48)	ELTSI.WllgllRCY
---------------------------------------------------------------------------




































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 MDP28919 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DMMLITGNLHSSPNPSPVPSPGSLEMGSHFQHTRRLLSRDNPPE
2) LASLPTCKYSKPMSNGRKPPESLLHSPMSPLPPTLSPHPRMQDPEGLDVPLDAT
3) NMAITSATNTQTISSSTQSSGPSLYPPSLPKHKTSDKTEKTDKQSKKPSVIPFHHRLTVTQDGPLEQDSPGGPQMGGIVALDPP
4) PVSGAVNASNASTPTGATGLTGEATQAASSSSKGLPSATPSANSTA
5) QPPVSVAQGLTKEPNNCSVPLTPPTSPEQPCSGKKKKKENPDMNISPRKKQFSALTTELTQRKEAPNGVTTWNFND
6) SPAMPQFSVPTPRTPRTPRGINAASSGQGSVKQDGTELSSPVSTP
1764
481
394
1308
301
780
1807
534
477
1353
376
824










Molecular Recognition Features






MoRF SequenceStartStop




NANANA