<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 MDP19828

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSACFVPNGASLEDCHSNLFYLADLTGIKWKRYVWQGPISAPMLFPVTEEDPILCSFSRCLKSDVLSVWRRSQRQGRRELWLFWWGDDPNFADLIHHELTAEDDGVWESGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKREHLSCSFTFFLHGDSNVCTSVEINQHQPVYHLSEDHLTLAQQASSPFQVILSPFGLNGTLTGQSFKLSDPPTQKLIEEWNQFYPISPTSKESAEDKMEDIDWEDDSLAAVEVLVGGVRMVYPACLVLVPQSDIPTITQTGSSHCTAVYSNGHQVPASNRDPAISSVTLTPPTSPEEAQTVHSHSAQKWMRLPVAMDGFSVDNTSHHGGKIPRRMASQVVETVWQECNINRAQNKRKFSATASNGTSEEETLIKVGAWDFVDSTQRSNCNCSRHKTLKQRASSTPGQPPTAGQTQQPPIKHKAGEKPEKGDKQQKRPQTPFHHRNSVCEDVTMETDASAGQRLALRGQESGRFPGLRPTDVGTGSKPPQLHSGAGSTVGSSGPTEMVGSPQPPPLSPHPCERGEEPSDTIKNPSTPQHFYPPSTEPCLLPQKGPDDARLEPLTQPFPPAYPETLEPTPYISAAVNMDDDGSHAPWRFFNLPRRKDAEFPTPTLPGDKLREEASLGAEGIMSVTESMAASKRLLKVSDERIQMYLQRQNQHLAAAITDGDHEPEVDPYAFVDGDVKFTFSDKKDKAGLEREPGKKHKKMAMLHLMVRIVLLHSSDSLMNPSQTLNAQRAAAHNRAASTSLIHDSDLAVSIKDLDNLFNSDEDEQTPGARRAVNGADEKFGSKETKPATLDPVSCISTADLHQMFPTPPSLEQHFMGYSPMNMGSKDGCMEPGSGLNALDGPTALGGPFKIEVEESFCSPKPSEIKDFSFVYKPELCQPFVGCSMFAPLKSLPSQCLPPIKLPDECVYRPSWTVGKLELLNSVPAMTIFSKDGENNAMEQDYIQTYTPQTHTPFLSNSAPPSNSGTSILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGIYINDPNMEAQYPCGCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSQEAEKRFEALRCISLEKTGGGGKDRVPDELISLLQDQCTNPFSPILALDPEGLSSQGPGGTTVPPCVRVEERDFHNDCYLALEHGRQFMDNMSGGKVDEVLVKSTCLHHWAKRSAVDVSALCSQDVLRVLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYLVLCPDSDSLLTGAKSFFRELTAVYESCKLGQHRPISKVHADGIVRVGGAAAKKLSEQPVNDWFLKAASGSSDAFAKLKLFAQVCRHDLAPYLATQPLDSSLLIQPTPVPSSTQSSSSQSSGSASSNSQTSMASGGSALNNNNNSAASNSGSGLPGSTNNTPSSSSSGPQGSSIQSAKPSSFPPFGSMGVQGNSSQSGALGQQAVTQNSSLSGDNSAINSQTQGPSEPPESTMEREKVGVPTDGDSHAITYPPAIMIYIVDPFSYEEAEPGSSQSSKWTLGLLRCYLEMLQALPTHIRNSVFVQIVPCQYLLQPVRSEERHLYAQHLKSLAFSVFTQCRRPLPTSTNVKSLTGFGPGLALDTSLRNPDRPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISVDVPNRARRKKGSARKMGLQKLWEWCLGLVQMTSLPWRVVIGRLGRIGHGELRDWSILLSRRNLQSVSRRLKENCKLCGISASDTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVNSSNYTHENIDIAFNPGNDGSDPMGGIFDLLEQENDLVDPDIINILPASPTTSPVHSPGSQYPHGGDGSKGQSTDRMESHEEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2175
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.415
Instability index52.39
Isoelectric point5.71
Molecular weight238311.74
Publications
PubMed=23594743

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

>MDP19828
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     203.10|      47|      47|    1530|    1576|       1
---------------------------------------------------------------------------
  987- 1012 (29.05/ 8.54)	...................I..QTYTPQTHTPFLS.............nSAPPSNSGTSI
 1496- 1540 (56.98/24.76)	PSSTQSS.SSQSSGSASSNS..QTSMASG....GS........alnnnnNSAASNSGSGL
 1541- 1585 (77.59/36.74)	PGSTNNTPSSSSSGPQGSSI..QSAKPSSFPPFGSM.....GV....qgN...S.SQSGA
 1586- 1626 (39.48/14.60)	LGQQAVTQNSSLSG.DNSAInsQTQGPSE.PPESTMerekvGV.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     370.53|     114|     403|    1322|    1443|       2
---------------------------------------------------------------------------
 1322- 1443 (191.61/116.58)	PL.TWQQFHKMAGRG.SYGTDESPEPLPIPTFLVGYEYDFvVLSPFGLPYWEklLLDPFG..SQR.DVGYLVLCPDSDS..LLTGAKSFFRELtavYESCKLGQHRPISKVHADGIVRVGGaaAKKLSE
 1727- 1847 (178.91/91.87)	PLpTSTNVKSLTGFGpGLALDTSLRNPDRPECLRLYTPPF.ILAPTKDKQTE..LGETFGeaSQKyNVLFVGYCLSHDQrwLLATCTDLYGEL...LETCIISVDVPNRARRKKGSARKMG..LQKLWE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     234.19|      65|     123|     412|     477|       3
---------------------------------------------------------------------------
  412-  442 (33.78/17.79)	...................................................................GAWDFVDSTQRSNCNCSRhKTL...KQRASSTPG
  443-  477 (48.78/23.04)	QP.PT..AGQ.TQQPPIKHKAGEKPEK.GDKQQKRPQT.PF............................................................
  497-  535 (52.28/25.70)	QRlAL..RGQeSGRFP.....GLRPTD.VGTGSKPPQL.HS..........................G...........................AGSTVG
  536-  572 (37.91/15.64)	SSgPTemVGS.PQPPPLSPHPCERGEE.PSDTIKNPST.P.............................................................
  577-  661 (61.44/31.93)	..............PP.STEPCLLPQKgPDDARLEPLTqPFppaypetleptpyisaavnmdddgshAPWRFFNLPRRKDAEFPT.PTLpgdKLREEASLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.50|      15|     198|     611|     628|       5
---------------------------------------------------------------------------
  611-  625 (28.86/11.86)	EPTPYISAAVNMDDD
  808-  822 (25.63/ 9.10)	EQTPGARRAVNGADE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     179.09|      43|     198|    1448|    1494|       6
---------------------------------------------------------------------------
 1448- 1490 (72.78/38.94)	DWFLKAASGSSDA...FAKLKLFAQVC...RHDLAPYLATQPLDSSLLI
 1654- 1689 (52.80/27.68)	.....AEPGSSQS....SKWTLGLLRC...YLEMLQALPTH.IRNSVFV
 2080- 2124 (53.51/25.35)	DWFWSACPQAQNQcplFLKASLHLHVSsvqSDELLHSKHSHPLDS....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.50|      15|    1105|     884|     898|      10
---------------------------------------------------------------------------
  884-  898 (28.52/16.73)	DGPTALGGPFK.IEVE
 1992- 2007 (24.99/13.61)	DGSDPMGGIFDlLEQE
---------------------------------------------------------------------------




































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 MDP19828 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AMEQDYIQTYTPQTHTPFLSNSAPPSNSGTSILPSPATPRFSAPTPRTPRTPRTPRGPASVQGS
2) DLDNLFNSDEDEQTPGARRAVNGADEKFGSKE
3) NCNCSRHKTLKQRASSTPGQPPTAGQTQQPPIKHKAGEKPEKGDKQQKRPQTPFHHRNSVCEDVTMETDASAGQRLALRGQESGRFPGLRPTDVGTGSKPPQLHSGAGSTVGSSGPTEMVGSPQPPPLSPHPCERGEEPSDTIKNPSTPQHFYPPSTEPCLLPQKGPDDARLEPLTQPFPPAYPETLEPTPYISAAVNM
4) PASPTTSPVHSPGSQYPHGGDGSKGQSTDRMESHEEAP
5) SSLLIQPTPVPSSTQSSSSQSSGSASSNSQTSMASGGSALNNNNNSAASNSGSGLPGSTNNTPSSSSSGPQGSSIQSAKPSSFPPFGSMGVQGNSSQSGALGQQAVTQNSSLSGDNSAINSQTQGPSEPPESTMEREKVGVPTDGDS
981
797
424
2020
1486
1044
828
622
2057
1632










Molecular Recognition Features






MoRF SequenceStartStop




NANANA