<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 MDP01623

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPTVLKKKEGMKEEEELGYDSDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNTASTGGHINVGQQGPGSMKDPASTCGLPLTPPTSPEQTLMGESGCSQSSISHSAVQEGTVSVHSPKKSGKITAKLHNRMVHRVWKECILNRSQSKRKQITAANLEEEAPKKIVSWDFVDPVQRVRCSCFRHKVFRQRFAAGSSRPPTINQPGFSVGTSSSLPPPASSKHKTTERQEKGEKLQKRPMMPFHHRPSVTEELCMEQDTNPKKYEKPLSIPARNPSKQMNMNPMDSPRSPTSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSALELQPLPGLEERTVLVGQRLPLMAEVSETALYRGMAQNSEPLWRSYRVPSSDDPEFRLPNLPCERYDTKMEINADSTALKRLLGQPNKRFKILRQQKPVQTLNYLDPLSLIQQPGEGLGDTSDPYTFEDGDIKYSFTGNKKCKLGAEKDPLKKSKSEDGVGTKEIPATGHSTPVPDGKDAMSIFSSAPKTDTRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKTPAVVSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTALGMMESPMVSMVPPQLAEFKMEVEDGLGSPKPEDIKDFSYVHRVPSFQPFVGSSLFAPLKMLPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPAATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLSSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMTSQSNLISQLGEGGRRTQEPPVSLLLLLQNQHTQPFTALSCLDYMSSNNRQTLPCMNWSYDRLQADSNDSWVECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGMDTVTRQPLKKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLNGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDEHVSDWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKHQTPAPASHAQKVPGNTGAVPSNSTCLSAAGAPPTGSSFNSTPSGGTTSLPAGSSSSSGSSVPQLSASSAAAGVNQMATTSTPGFSGNIGSGQNASAGGNTADRSQGSAGPGGDTESGQNLPQQQQEGQEGVTERERVGIPTEAESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLGLMRCYTEMLDNLPENMRDSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDVPNRSRRSKLSARKIGLQKLWEWCIGIIQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISSADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNLL
Length2164
PositionMiddle
OrganismCuculus canorus (common cuckoo)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Cuculiformes> Cuculidae> Cuculus.
Aromaticity0.07
Grand average of hydropathy-0.405
Instability index57.96
Isoelectric point6.05
Molecular weight238226.33
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

>MDP01623
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.98|      15|      17|    1562|    1576|       1
---------------------------------------------------------------------------
 1562- 1576 (28.04/16.88)	SGNIGSGQNASAGGN
 1582- 1596 (26.94/15.84)	QGSAGPGGDTESGQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     155.42|      35|      37|     810|     845|       2
---------------------------------------------------------------------------
  810-  836 (41.01/19.05)	.............TVAD.......................LQRMF.PT..............PPSLEQHPAFSPVMSY
  837-  870 (16.38/ 6.86)	KDGISSEtV.......................................talgmmespmvsmvPPQLAE...FK..MEV
  871-  894 (32.20/13.40)	EDGLG........................................sPK..............PEDIKDFSYVHRVPSF
  895-  946 (33.88/14.52)	QPFVGSS..........lfaplkmlpsqcllplkipdaciFRPSW.AV..............PPKIEQLP.LPPAATF
  948-  977 (31.95/13.23)	RDGYNN..VpsvgSLAD.......................QDYLQ.MN..............TPQMN.....TPV...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.74|      36|      39|      18|      56|       3
---------------------------------------------------------------------------
   21-   56 (65.97/52.55)	PIISAPAQDDPILLSFI.RCLQANLLCVWRRDVKPDC
   58-   94 (63.76/40.08)	ELWIFWWGDEPNLVDVIhRELHMVEEGLWENGLSYEC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.73|      23|      39|    1496|    1521|       4
---------------------------------------------------------------------------
 1496- 1521 (34.16/31.33)	VPSNSTCLSAAGAPPTGSSfnSTPsG
 1538- 1560 (40.57/24.19)	VPQLSASSAAAGVNQMATT..STP.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.65|      41|      42|     453|     494|       5
---------------------------------------------------------------------------
  453-  491 (66.66/36.76)	..........................KLQKRPMMPFHHRP.SVTEELCMEQDTNP..KKYE....KPLSIPA
  493-  536 (55.15/30.36)	NP......................skQMNMNPM....DSPrSPTSPLPPTLSPQP..RGQEaenlDPPSVPV
  537-  595 (31.84/ 9.88)	NPalygsalelqplpgleertvlvgqRL...PLMAEVSET.ALYR..GMAQNSEPlwRSYR....VPSS...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.33|      18|      18|    1197|    1214|       6
---------------------------------------------------------------------------
 1197- 1214 (33.78/22.19)	SCLDYMSSNNRQTLPCMN
 1216- 1233 (31.55/20.15)	SYDRLQADSNDSWVECFN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     224.74|      60|    1099|     596|     682|       7
---------------------------------------------------------------------------
  196-  246 (42.49/12.03)	...LTG.QsykmsdPAT..R.......KLMEEWQYFYPTVL..KKKEGmkeeEELGYDSDfPVAVE............
  623-  682 (106.45/ 7.85)	LKRLLG.Q......PNK..RFKILRQQKPVQTLNYLDPLSL..IQQPG....EGLGDTSD.PYTFEDGDIKYS..FTG
 1723- 1784 (75.80/50.05)	IKSLTGfG......PAAsiEMTLKNPERPSPIQLYSPPFILapIKDKQ....TELGE......TFGEASQKYNvlFVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.78|      17|      43|     995|    1011|       8
---------------------------------------------------------------------------
  995- 1011 (33.78/15.42)	SPA.TPRFSVPTPRT.PRT
 1036- 1054 (23.01/ 8.10)	SPAsTPSTTRPLNSVePAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.94|      23|      43|     271|     294|       9
---------------------------------------------------------------------------
  271-  294 (38.17/26.21)	SQNTASTGGHINVgQQGPGSMKDP
  316-  338 (40.78/23.14)	SGCSQSSISHSAV.QEGTVSVHSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.38|      20|      28|    1087|    1113|      10
---------------------------------------------------------------------------
 1087- 1106 (40.85/39.03)	CICACNMNIK.GADVGLYIPD
 1117- 1137 (34.53/15.97)	CGFSAIMNRKlGYNSGLFIED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     316.74|     100|    1309|     694|     803|      11
---------------------------------------------------------------------------
  694-  803 (148.64/107.92)	PLKKSKSEDGVGTKeipaTGHSTpvPDGKDAMSifSSAPKTDTRQDNAAG....RAGSGSLTQ.VTDLAPSLHDLDNIFDNSDEDElgAVSPALRSSKTPAVVSEERPVGKDGRT
 2011- 2115 (168.11/95.68)	PSPGSPSGIGVGSH....FQHSR..SQGERLLS..REAPEELKQQPLALGyfvsTAKAENLPQwFWSSCPQAQNQCPLFLKASLHH..HISVAQTDELLPARNSQRVPHPLDSKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.69|      26|      36|    1292|    1318|      14
---------------------------------------------------------------------------
 1292- 1318 (42.81/30.22)	DAIQKKRTGRTWENIQHVQGPLtWQQF
 1330- 1355 (44.88/27.07)	DTVTRQPLKKDFLTISPFSLPF.WERL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.64|      16|      21|    1655|    1672|      15
---------------------------------------------------------------------------
 1655- 1672 (25.25/22.01)	LLGLMRC.YteMLDNLPEN
 1678- 1694 (25.39/14.79)	ILQIVPCqY..MLQTMKDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.36|      32|    1238|     132|     165|      16
---------------------------------------------------------------------------
  132-  165 (52.88/39.89)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1373- 1404 (59.48/36.00)	PENEA.LLNGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.65|      27|      27|    1813|    1839|      18
---------------------------------------------------------------------------
 1813- 1839 (48.20/34.14)	IDVPNRSRRSKLS.ARKIGLQKLWEWCI
 1842- 1869 (43.45/29.91)	IQMTSLPWRVVIGrLGRLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.00|      33|      38|     353|     390|      20
---------------------------------------------------------------------------
  353-  390 (49.29/46.04)	VHRVWKECIlnRSQSKRKQITAANleeEAPKKIVSWDF
  394-  426 (61.71/41.36)	VQRVRCSCF..RHKVFRQRFAAGS...SRPPTINQPGF
---------------------------------------------------------------------------




































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 MDP01623 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AAGSSRPPTINQPGFSVGTSSSLPPPASSKHKTTERQEKGEKLQKRPMMPFHHRPSVTEELCMEQDTNPKKYEKPLSIPARNPSKQMNMNPMDSPRSPTSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSALELQ
2) GAEKDPLKKSKSEDGVGTKEIPATGHSTPVPDGKDAMSIFSSAPKTDTRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKTPAVVSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPV
3) GSLADQDYLQMNTPQMNTPVTLSSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQ
4) LLPPKHQTPAPASHAQKVPGNTGAVPSNSTCLSAAGAPPTGSSFNSTPSGGTTSLPAGSSSSSGSSVPQLSASSAAAGVNQMATTSTPGFSGNIGSGQNASAGGNTADRSQGSAGPGGDTESGQNLPQQQQEGQEGVTERERVGIPTEAES
5) NLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
6) SQNTASTGGHINVGQQGPGSMKDPASTCGLPLTPPTSPEQTLMGESGCSQS
412
689
958
1472
2000
271
548
833
1056
1622
2042
321










Molecular Recognition Features






MoRF SequenceStartStop




1) LWRSYR
586
591