<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 MDP12055

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHHELSSEEDGEWESGLSYECRTLLFKAVHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEIAQHQPVQRLGEEHLSLVQQNASPLQVILSPYGLNGTVTGQSFKMSDHPTQKLIEEWRQFYPISPSAKDRPEDKMEDADWEDDSLAAVEVLVAGVRMVYPACLVLVPQSDLPALAPQGSANPSPILCEGQGAHRDPAMSSVTLTPPTSPEEAQTDSQAAQRWLKLCSTVDGFSSNSSCIHGSKIPRRLAAQVVESVWQECTTNRAQNKRKFATLTNGTCEEEEGDKTGVWDFVEFSHRAHCNCSRHKNQKQRSGSTSGNPPSVGQPSQPLPKHKLGEKLEKGEKQQKRPQTPFHHRSYVFEEQAMEPQRLCMRTQDEGPYPSLHHVDTAPSKAPMLHTHRPLQDLAGSPQPPPLSPHPCERGEEDPGATKSSSTPIHQHFYPPSSEPCLLPQKTSSDEPHLEPLPLPFPPAYPDSLEPTVYVGSAINPNEDSAHNPWKYFNLPRKKTSDFFTPLLPVDKLQDDSGEGGQENIVSVTELMSGSGRPLKVSEDLVRTYTQRRNSHLAAAMADEDQEEEPDPYAFVEGDEEFIFTDKKDKPGSDRETSKRHKGDDGSGTSADDGQGAAGGKPVPSTSLIHETDLAVSINDLDNLFNSDEDELAQPGSRRAGVHGDKFGSKEHKTSNLDPLSCISSADLHKMFPTPPSLEQHIMGYSPMNTGGKDYGGLEAGVGLTLLDGSQFSSHYKMEVEEGFCSPKPSEIKDFSFVYKSEACKAFTGCSMFAPLKTLPSQCMMPIKLPEDCVYTPSWNMGKLELIPPVPTMGLLTKDGNIPSVEPDYQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLNDNGEAQYPCTCGFSAVVNRRYGSSAGLFLEDELDVVGRGSDAGRDSERRFQELRAASLHRTGNPTERPPDELILLLQDQCTNPFSRMAGVEYPKALSSGTSHSSLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHNWPKRKAAEVSRLFSQDVLRVLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYVVICPENEALLRGAKSFFKDLMAAYEACRLGQHRPICKTHADGILRVGTAEGRNRAEQPLSDWFLKMASSNGNSDAFSKLKLYAQVCRHDLAPYLAGQSLDSSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSATSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSGAQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGESHAVTFPPSIVVYIVDPFSYEDGERDTHSSVWTLGLLRCYVEMLQFLPPHIRNSVSVQIIPCQYLLQPVRIEERHLYGQHLKSLAFSVFTQCRRPLPGNTNIKALTGFGPGLAIDMALRSTERPECLRLYTPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQSGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNNGTTEQNLDIAFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2120
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-0.467
Instability index58.83
Isoelectric point5.66
Molecular weight233296.74
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
>MDP12055
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     168.15|      32|      33|     946|     977|       1
---------------------------------------------------------------------------
  946-  977 (60.44/26.20)	GNIPS.VEPDYQS..YT.PQT.HTPFMS......NSAPPSNSG
  979- 1008 (34.84/11.87)	GILPSpATPRFSA..PT.PRTpRTP.RT......PRGPAS...
 1011- 1049 (33.69/11.22)	GSLKY.DNSDLYSpaST.PST.CRPLSSvepatvPSIPEAHS.
 1476- 1503 (39.18/14.30)	...PS.SGP..QS..ATsSST.AQPANT......NSTPPSSTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.37|      32|      33|     535|     566|       2
---------------------------------------------------------------------------
  486-  513 (47.21/25.20)	PQRlCMR.TQDEGPYPS....LHHVD...TAPSKAP
  535-  566 (64.42/37.92)	PHP.CERGEEDPGATKSSSTPIHQHF...YPPSSEP
  570-  597 (41.74/21.16)	PQK.TSSDE..P.....HLEPLPLPFppaYPDSLEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.34|      21|      33|    1067|    1093|       3
---------------------------------------------------------------------------
 1067- 1093 (31.31/44.35)	CNFDSccvcVCNMniR.GADVGVYLNDN
 1102- 1123 (34.04/23.25)	CGFSA....VVNR..RyGSSAGLFLEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      12|      33|     150|     161|       4
---------------------------------------------------------------------------
  150-  161 (21.41/13.51)	DEKPINK..SEHLS
  182-  195 (17.87/ 9.88)	QHQPVQRlgEEHLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     111.15|      27|      33|    1170|    1196|       5
---------------------------------------------------------------------------
 1170- 1196 (46.26/29.60)	QCTNPFSRMA...GVEYPKALSSGTSHSSL
 1202- 1230 (41.75/25.87)	DCYND.CYMAlehGRQFMDNMSGGKVDEAL
 1234- 1252 (23.14/10.48)	TCLHNWPKRK...AAEVSRLFS........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.24|      28|      38|      21|      52|       6
---------------------------------------------------------------------------
   21-   52 (41.09/33.48)	CLA.DLTGIkWRRFvwQGPTSSPI.LFpVTEEDP
   60-   89 (50.14/24.55)	CLAaDVLSV.WRRH..HTPGRRELwLF.WWGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.66|      25|      38|     372|     396|       7
---------------------------------------------------------------------------
  372-  396 (44.52/28.65)	VE.SVWQECTTNRAQNKRKFATLTNG
  412-  437 (42.14/26.69)	VEfSHRAHCNCSRHKNQKQRSGSTSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.35|      25|      35|    1504|    1528|       8
---------------------------------------------------------------------------
 1504- 1528 (46.57/21.86)	PQAMGGIGGVGMPSA.K..PSSYT.PYGT
 1540- 1566 (32.58/13.07)	PQSGAQTAGENGPTAnQ..PQASTePVET
 1569- 1593 (26.20/ 9.07)	ERDKVGVPTDGESHA.VtfPPSIV.VY..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      59.42|      12|      37|     830|     841|       9
---------------------------------------------------------------------------
  830-  841 (22.62/12.14)	GY.SPMNTGGKDY
  869-  881 (18.30/ 8.23)	GFcSPKPSEIKDF
  882-  893 (18.51/ 8.42)	SF.VYKSEACKAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.41|       9|      32|    1351|    1361|      11
---------------------------------------------------------------------------
 1351- 1361 (11.98/11.82)	ICPENEAllRG
 1375- 1383 (16.43/ 8.39)	ACRLGQH..RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.52|      28|     506|    1259|    1287|      13
---------------------------------------------------------------------------
 1259- 1287 (45.07/29.11)	LLSLQpVLQDAIQKKRSVRSWGVQGPLTW
 1769- 1796 (49.45/27.27)	IISID.VPNRARRKKGSARRLGLQKLWEW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.76|      49|     412|    1391|    1470|      14
---------------------------------------------------------------------------
 1391- 1440 (80.76/41.48)	GILRVGTAE.....GR..NRAEQPLSDWFLKMASSNGNSDAfSKLKLYAQVCRHDLA
 1799- 1854 (74.00/11.14)	GLVQVTSLPwrvviGRlgRMGHGELRDWSILLSRRNLQSLS.KRLKETCRMCGISAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.55|      18|      39|     232|     250|      15
---------------------------------------------------------------------------
  232-  250 (31.16/22.72)	LIEEWRQFYP....ISPSAkDRP
  270-  291 (27.39/14.57)	LVAGVRMVYPaclvLVPQS.DLP
---------------------------------------------------------------------------




































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 MDP12055 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ALAPQGSANPSPILCEGQGAHRDPAMSSVTLTPPTSPEEAQTDSQ
2) CSRHKNQKQRSGSTSGNPPSVGQPSQPLPKHKLGEKLEKGEKQQKRPQTPFHHRSYVFEEQAMEPQRLCMRTQDEGPYPSLHHVDTAPSKAPMLHTHRPLQDLAGSPQPPPLSPHPCERGEEDPGATKSSSTPIHQHFYPPSSEPCLLPQKTSSDEPHLEPLPLPFPPAYPDSLEPTVYVGSAINP
3) FTPLLPVDKLQDDSGEGGQENIVSVTELMSG
4) INILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEA
5) LLTKDGNIPSVEPDYQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSL
6) NDLDNLFNSDEDELAQPGSRRAGVHGDKFGSKE
7) SSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSATSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSGAQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGES
8) TQRRNSHLAAAMADEDQEEEPDPYAFVEGDEEFIFTDKKDKPGSDRETSKRHKGDDGSGTSADDGQGAAGGKPVPSTSLIHET
292
422
630
1961
941
765
1450
676
336
607
660
2001
1013
797
1581
758










Molecular Recognition Features






MoRF SequenceStartStop




1) EEPDPYAFVEGDEE
2) HKLGEKL
3) WKYFNLPRKK
694
452
616
707
458
625