<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 MDP29133

Description Mediator of RNA polymerase II transcription subunit 13
SequenceSEHLSCAFTFFLHGDSNVCTSVEIAQHQPLYLVNEEHIALAQSAASPFQVILSPYGLSGTLTGQAYKMSDPATRKLLEEWQYFYPMVLKKKEGVKEEASMEYDDDSPVAVEVIIGGVRMVYPSAFVLISQNDIPVSQSVSSAGGQLSFGQLGLGSIKESNSCGMPLTPPTSPEQANLGEMGGLQTTVSHLPGQEGAAGLQSPKRLGKIPQQMVHRVWKECNLSKVQPRRTQAANGNPEEEACNNVPAWDFVEPAKRVTCSCYRHKLLKQRNAVGPSRPQTTSQPGFNGGGSSSSSSSLPPPASSKHKTTDKQEKGDKQQKRPMTPFHHRPSVTEELCMEQDPSGQKLSLAGIDPSLDVHGSRKFPKQVPETLQSKPINLNPMDSPHSPGSPLPPTLSPQPRGQEAEVLDPTSVPMNPALFMQEVSETALYCGAIGSHSQEWWQGFSLPSSEDTGFRTPKLHGDICDLKQEANTDSSALKRLLAQPNKRFKILEERIQAQVESLNYMDPSRLIQQLGDSSGEASDPYTFVDGDIKYSFTSSKKYKIGTEKDPMKKAKSEEGFITRETPLPGHPAAVPDGKDAMSIFSPTPKNADARQDGALSRTVPTSLMRETDLVVSLNDLDNIFDNSDEDELGEFIKRLFNSCSPVLFVPQGKPTTTVRPFIFSVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETGTGLIVMDNPIINMATAQLAEYKMEVEDGLGSPKPEEIKDFSYVHKAVTVQPFIGSSVFAPLKTLPSQCLPPLKALDSCLYRPSWAIPPKIEHLPLPPAAPFIRDGYVNVPSVGSLADQDYIQMNTPQISTPVAVSSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGVSTASGQGSVKYDGTDLCSPASTPSTTRPLNSVEPATVQSIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDEMDIFGRGSEMGQAAERRLMMCRTTALPQTGDGNKRPQDPPPNLLILLQDQCTRLFTSLSSIDCISSRNRPALPLGTWLYDKLRADGSDCCTECFNALEQGRQYVDNPTGGKVDEALVRSTSLHYWPHTNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLVGYDKDFLTISPFALPFWERLLLDPYGGQRDVAYLVVCPENEAMLDEARTFFRDLSAVYEMCRLGQHRPICKVLRDGIMRVGKNAAQKLSEEPVDEWFSQPWSSEESDNHSKLKLYAQVCRHHLAPYLATLQLDNGLLIPPKHQPSSNTSSTQSQAAPGNTGSCPSNPEVAPAPGPTGSGVNSTSSTGSINGMSSGSISGSSVPPASSTVPGLNLMGVAPPSSGFGGSVGTNPMQNANPTANSVDRPQGSTPSMGGEAEAGQNSMQQQQEGQENATDRERIGIPTEAESADSNTYPPAVVIYIVDPFTYTSDEESPTANMWLLGLMRCYTEMLDNLPENMRNSFILQIVPCQYLLQPVKDDHVFYSQHLKSLAFSIYSQCRRPLPTQIHIKSLTGFGPAASIEMVLKNPESPSDLEIYRKPYFLLHIREKQEEFINSFSLCSQKQQMYKSGVHVECKEEWLSVEFRELWYKCIFVCMHVLHLPVTVHKHIHTISKFSCKVTLDWCVHLLQMKGIVWCLNINLKKKLSSKKKKNWSILLGECSLQSISKQLKETCKMCGISAGDSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQTSQLNTPQDASCTHILVFPMSATIQVAPANYPNEDGLSPINDDMFDLQFDEMDNDIGIFITSPNSSPVPSPGSPSGIGGSSHFQHSRSQGERLSSKEAPEELKQQPLALGYYVSTAKAENLPHWFWSSCPQAQNQCPLFLKASLHHHISIAQTDELLSSKKPQRVPHPLDSKTTSDVLSRFVLEQYNALSWLMCNPATHDRRSCLPLHFVVLTQMYNAIMNLL
Length2023
PositionMiddle
OrganismLatimeria chalumnae (Coelacanth)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Coelacanthiformes> Coelacanthidae> Latimeria.
Aromaticity0.07
Grand average of hydropathy-0.383
Instability index59.58
Isoelectric point5.82
Molecular weight221939.11
Publications









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

>MDP29133
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.34|      41|     338|      13|      71|       1
---------------------------------------------------------------------------
   13-   56 (64.61/33.66)	HGDSNVCTSV.EIAQHQPlylVNEEHIALAQSAASPFQVILSPYG
  359-  400 (72.73/31.89)	HGSRKFPKQVpETLQSKP...INLNPMDSPHSPGSPLPPTLSPQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     134.38|      43|     337|     536|     585|       2
---------------------------------------------------------------------------
  536-  585 (59.93/45.12)	SFTSSKKYKiGTekDPMKKAKSEEgfITRetPLPG.HPAAVPDGKDAMSIF
  877-  920 (74.45/35.42)	SGQGSVKYD.GT..DLCSPASTPS..TTR..PLNSvEPATVQSIPEAHSLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     250.73|      69|     108|     649|     718|       3
---------------------------------------------------------------------------
  277-  315 (49.56/18.54)	.........RP...........QTTSQP............GFNG....................GGSSSSSSSLPPPASS.KHKTTDKQEKG................
  649-  718 (118.52/59.26)	FVPQG....KP...........TTTVRPFIFS..VADLQRMFPT....................PPSLEQHPAFSPVMSY.KDGISSETGTGLIVmDNPIINMATAQL
  724-  828 (82.66/36.49)	EVEDGlgspKPeeikdfsyvhkAVTVQPFIGSsvFAPLKTL.PSqclpplkaldsclyrpswaiPPKIEHLP.LPPAAPFiRDGYVNVPSVGSLA.DQDYIQMNTPQI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     242.23|     101|     335|     960|    1106|       4
---------------------------------------------------------------------------
  972- 1031 (65.16/95.27)	......................................................................................................................................................................................................................................................................................................................................................................CGFSAimNRKLGYNSGLFIedEMDIFGRGSEMGQAAERRLMMCRTTALP.QTGDGNkRPQD
 1061- 1106 (57.78/15.82)	NRPALPLGTWLYDKLRADGSDCCTECF.NALEQGRQYVDNPTGGKVD....................................................................................................................................................................................................................................................................................................................................................................................
 1396- 1442 (48.85/10.17)	SGSSVPPASSTVPGLNLMGVAPPSSGFgGSVGTNPMQNANPTANSVD....................................................................................................................................................................................................................................................................................................................................................................................
 1754- 1809 (70.45/22.57)	...............................................rpqgstpsmggeaeagqnsmqqqqegqenatdrerigipteaesadsntyppavviyivdpftytsdeesptanmwllglmrcytemldnlpenmrnsfilqivpcqyllqpvkddhvfysqhlkslafsiysqcrrplptqihiksltgfgpaasiemvlknpespsdleiyrkpyfllhirekqeefinsfslcsqkqqmyksgvhveckeewlsvefrelwykcifvcmhvlhlpvtvhkhihtiskfsckvtldwcvhllqmkgivwclninlkkklsskkkknwsillgecslqsiskqlketckmCGISA..GDSPSILSACLV..AMEPQGSFVVMPDAVTMGSVFGRSTALNmQTSQLN.TPQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     182.56|      55|     387|      57|     157|       5
---------------------------------------------------------------------------
   80-  145 (81.68/120.32)	WQYFYPMVLKKKEGVKEeaSMEydddsPVAVEVIIGGvrmvYPSAFVLISQNDIPVSQS..VSSAGGQ
 1170- 1226 (100.88/47.11)	WQQFHKMAGRGSYGSEE..SPE.....PLPIPTLLVG....YDKDFLTISPFALPFWERllLDPYGGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.66|      27|      28|    1675|    1701|       6
---------------------------------------------------------------------------
 1675- 1701 (48.81/36.36)	HVLHLP.VTVHKHIHTISKFSCKVTLDW
 1704- 1731 (42.86/30.93)	HLLQMKgIVWCLNINLKKKLSSKKKKNW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.15|      26|      30|    1878|    1907|       7
---------------------------------------------------------------------------
 1878- 1907 (39.49/26.33)	GgsshFQHSRSQGERLSS...KEAPEELKQQPL
 1910- 1938 (43.66/20.42)	G....YYVSTAKAENLPHwfwSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.77|      11|      26|    1516|    1526|       8
---------------------------------------------------------------------------
 1516- 1526 (23.61/12.23)	NMWLLGLMRC.Y
 1539- 1550 (17.16/ 7.09)	NSFILQIVPCqY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.74|      18|      25|    1570|    1587|      15
---------------------------------------------------------------------------
 1570- 1587 (33.94/20.90)	AFSIYSQCRRP.LPTQIHI
 1596- 1614 (25.80/13.78)	AASIEMVLKNPeSPSDLEI
---------------------------------------------------------------------------




































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 MDP29133 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KECNLSKVQPRRTQAANGNPEEEACNNVPA
2) KKAKSEEGFITRETPLPGHPAAVPDGKDAMSIFSPTPKNADARQDGALSRTVPT
3) KQRNAVGPSRPQTTSQPGFNGGGSSSSSSSLPPPASSKHKTTDKQEKGDKQQKRPMTPFHHRPSVTEELCMEQDPSGQKLSLAGIDPSLDVHGSRKFPKQVPETLQSKPINLNPMDSPHSPGSPLPPTLSPQPRGQEAEVLDPTSVPMNPAL
4) NGLLIPPKHQPSSNTSSTQSQAAPGNTGSCPSNPEVAPAPGPTGSGVNSTSSTGSINGMSSGSISGSSVPPASSTVPGLNLMGVAPPSSGFGGSVGTNPMQNANPTANSVDRPQGSTPSMGGEAEAGQNSMQQQQEGQENATDRERIGIPTEAESA
5) PASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGVSTASG
6) PVPSPGSPSGIGGSSHFQHSRSQGERLSSKEAPE
7) SNSCGMPLTPPTSPEQANLGEMGGLQTTVSHLPGQEGAAGLQSPKRLGKI
218
553
268
1332
839
1867
159
247
606
419
1487
878
1900
208










Molecular Recognition Features






MoRF SequenceStartStop




NANANA