<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 MDP11987

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRPGRRELWLFWWGDDPNFAELIHHELTAEEDGVWESGLSYECRTLLFKAIHNLLERCLMNRSFVRVGKWFVKPYEKDEKPINKSEHLSCSFPFFLHGESNVCTSVEINQHQPVYHLSDEHLTLAQQASSPFQVILSPFGLNGTLTGQSFKLSDPPTQKLIEEWNQFYPISPSSKDKDKHGSPSEDKMEDMDWEDDSLAAVEVLVGGVRMVYPACLVLVPQSDIPAVAPQGSSHCTTVYSGGHQVPASQRDPAISSVTLTPPTSPEEAQTVVSQSAQKWVKMSSAVDGVSVDSTSHHEGKIPRRLASQVVERVWQECNINRAQNKRKFSATANGTCEEELMEKVGTWDFVESAQRSHCNCSRHKSLKQRGGSIPGQPQSTGQPTHTQPPTKHKAGGDKPEKGDKQTKRPQTPFHHRSTTCDDVTKETEVAAGQRLAMRVQQAGGGFSGLRPSDSVTKPPQLHGGGVGSGGSSSEMTGSPQPPPLSPHPCERDRGEETGNGSMKNPSTPHSQHFYQPPPEPCLVGQKGGEGEPRRLDGLALHFHHPHTSYPSEPLEPTMYVGSAVNLEEDGSPAPWRFFNLPRRKEAEIPTPMLPGDKLRDRERDEASGGQEVVSVTELMATSKRPLKVSEERVQMYLQRRNQYLAAAITDDDDHEPEVDPYAFEDGDVKFSFSDKKDKTGGERQPGKKHKGEDGAAGLSDDAARAAAHARTASTSLIHETDLAVSINDLDNLFNSDEDELTPGSRRAVNGTGDKFGNKEPKPATLDPVSCISSADLHQMFPTPPSLEQHIMGYSPMNMGSKEYGGLEVGQGMTNLDGTSSLGGHFKIEVEEGYCSPKPQEIKDFSFVYKPELCQAFVGCSMFAPLKTLPSQCLPPIKMPDECIYRPSWTTVGKQEMLNHPHVPSMAYLNKDSNIPSVGSAMDQDYSQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSDPTGEAQYPCTCGFSAVVNRRYGNSSGLFLEDELDIIGRDSDVSREAEKRFEALRQHSLERTGGGGGGRGERVPDELILLLQDQCTNPFSPMAGMEPDSLAARGAGGCPVPACVRVEERDYHSDCYMALEHGRQFMDNMSGGKVDEALVKTTCLHRWSKQNAVDITALCSQDVLRVLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYLVVCPDNEALLQGAKNFFRDLTAVYESCRLGQHRPISKDHPDGIVRVGGAAAKKLAEQPVSDWFLKAASGNSDAFAKLKLYAQVCRYDLAPYLASQPLHSSLLAQPTPPPSSQSSSMQSSGSSSTTSTGPQNSATPGGPSLPNSSGSAPSNSTGVANSANSAASSGSLPSSGMQSAKPSSFPPFGTMGLQNQGLDGGTQGGQLGQQAGSQNTGLPGGDSASQAQAPTEPLESTMEREKVGVPTDGESHAITYPPAIVVYIVDPFTYEEPEAGSSVWTLGLLRCYLEMLQFLPPHIRNAVSVQIIPCQYLLQPVRSEERHIYAQHLKSLAFSVFSQCRRPLPGSTNVKSLTGFGPGLAIDTALKSPERPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISIDVPNRARRKKGSARRSGLQKLWDWCLGLVQMTSVPWRVVIGRLGRMGHGELKDWSILLSRRNLQSLSRRLKEVCRMCGISASDTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVASSNYTTDTNIDIAFNPIPDGSDAIGIFDLLDQENDLVDPDIINILPASPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHDEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMKML
Length2187
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.07
Grand average of hydropathy-0.459
Instability index56.43
Isoelectric point5.73
Molecular weight238941.87
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

>MDP11987
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.06|      19|      22|    1516|    1534|       1
---------------------------------------------------------------------------
 1000- 1018 (33.49/15.03)	SYTP......QTHTPFMSNSAPPSN
 1514- 1532 (32.57/14.37)	SSSM......QSSGSSSTTSTGPQN
 1533- 1557 (25.00/ 8.97)	SATPggpslpNSSGSAPSNSTGVAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.62|      20|      22|     515|     534|       2
---------------------------------------------------------------------------
  442-  464 (28.83/12.24)	GGSI.PG.QPQStgqpTHTQPPTK..H
  515-  534 (38.84/19.64)	GGGF.SGLRPSD....SVTKPPQL..H
  535-  559 (21.95/ 7.15)	GGGVgSGGSSSE..mtGSPQPPPLspH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.46|      19|      22|    1584|    1602|       3
---------------------------------------------------------------------------
 1584- 1602 (37.41/23.21)	FGT.MGLQNQGLDGGTQGGQ
 1603- 1622 (31.06/17.72)	LGQqAGSQNTGLPGGDSASQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.79|      22|      22|     795|     816|       4
---------------------------------------------------------------------------
  795-  816 (36.76/21.60)	AVSINDLDNLFNSDEDE...LTPGS
  817-  841 (33.03/18.61)	RRAVNGTGDKFGNKEPKpatLDPVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.46|      18|      22|    1330|    1347|       5
---------------------------------------------------------------------------
 1330- 1347 (35.65/19.87)	SWGVQ...GPLTWQQFHKMAG
 1350- 1368 (23.94/10.57)	SYGTDespEPLPIPTF..LVG
 1372- 1387 (22.88/ 9.72)	DFVVL...SPFGLPYWEKL..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.22|      15|      22|    1208|    1222|       6
---------------------------------------------------------------------------
 1208- 1222 (27.66/14.76)	PDELILLLQDQCTNP
 1231- 1245 (28.56/15.50)	PDSLAARGAGGCPVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.29|      18|      22|    1669|    1689|       7
---------------------------------------------------------------------------
 1669- 1689 (22.89/25.87)	PEAGSSVwTLGLLRC.YLemLQ
 1693- 1711 (29.41/17.02)	PHIRNAV.SVQIIPCqYL..LQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.28|      18|      22|    1434|    1455|       8
---------------------------------------------------------------------------
 1434- 1455 (25.58/27.77)	RPISkdhpDGIVRVGG....AAAK.KL
 1458- 1480 (22.70/11.85)	QPVS....DWFLKAASgnsdAFAKlKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.77|      30|      31|    1022|    1052|       9
---------------------------------------------------------------------------
 1022- 1052 (53.70/26.62)	GILPSPATPRFS.APTPRTPRtPRTPRGPASV
 1054- 1084 (50.08/21.14)	GSLKYENSDLYSpASTPSTCR.PLNSVEPATV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.74|      18|      27|    1847|    1864|      10
---------------------------------------------------------------------------
 1847- 1864 (35.64/20.34)	GSARRSGLQKLWDWCLGL
 1877- 1894 (34.10/19.14)	GRLGRMGHGELKDWSILL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.22|      17|      22|     603|     622|      11
---------------------------------------------------------------------------
  603-  619 (32.20/14.08)	EPRRLDGLALHFHHPHT
  627-  643 (27.02/15.43)	EPTMYVGSAVNLEEDGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.89|      11|      22|     897|     907|      12
---------------------------------------------------------------------------
  897-  907 (20.18/10.15)	FKIEVEEGY..CS
  920-  932 (16.70/ 7.13)	YKPELCQAFvgCS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     132.85|      31|      31|     309|     339|      13
---------------------------------------------------------------------------
  275-  306 (36.58/22.35)	.VLVGGVRMvyPACLVLVPQSDIPAVAPQGSSH
  309-  339 (52.63/36.49)	TVYSGGHQV..PASQRDPAISSVTLTPPTSPEE
  342-  370 (43.64/28.57)	TVVSQSAQ...KWVKMSSAVDGVSV.DSTSHHE
---------------------------------------------------------------------------




































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 MDP11987 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CNCSRHKSLKQRGGSIPGQPQSTGQPTHTQPPTKHKAGGDKPEKGDKQTKRPQTPFHHRSTTCDDVTKETEVAAGQRLAMRVQQAGGGFSGLRPSDSVTKPPQLHGGGVGSGGSSSEMTGSPQPPPLSPHPCERDRGEETGNGSMKNPSTPHSQHFYQPPPEPCLVGQKGGEGEPRRLDGLALHFHHPHTSYPSEPLEPTMYVGSAVNL
2) CTTVYSGGHQVPASQRDPAISSVTLTPPTSPEEAQTVVSQSAQ
3) FSDKKDKTGGERQPGKKHKGEDGAAGLSDDAARAAAHARTAST
4) GSPAPWRFFNLPRRKEAEIPTPMLPGDKLRDRERDEASGGQEVVSVTELMATSKRPLKVSEER
5) LHSSLLAQPTPPPSSQSSSMQSSGSSSTTSTGPQNSATPGGPSLPNSSGSAPSNSTGVANSANSAASSGSLPSSGMQSAKPSSFPPFGTMGLQNQGLDGGTQGGQLGQQAGSQNTGLPGGDSASQAQAPTEPLESTMEREKVGVPTDGE
6) NDLDNLFNSDEDELTPGSRRAVNGTGDKFGNKEPKPAT
7) SPVHSPGGHYHQGGDGSKGQSTDRMESHDEAP
8) SVGSAMDQDYSQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENS
430
307
744
642
1498
799
2038
988
638
349
786
704
1646
836
2069
1061










Molecular Recognition Features






MoRF SequenceStartStop




1) WRFFNLPRRKEAEI
647
660