<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 MDP11972

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFIRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKDFVRIGKWFVKPYDLEEKHMGTSEHLSCSFTFFLHGESNVCTSVEVAQHQPAYHITDDHTRLAQISSAPVQVILSPYGLAGSLTGQAYKMSDPAVRKLMEEWSYFYPMVLQRHREGGAGTGGMGAEREGTDRPYDPHSHVAVEVIVGGVRMIYPAAFVLVAQGDLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTTVSSVLPAQESAMGVTNSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGPREREAGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALKRLFMQTQKRFKISEACVREHIQTLGLLHQPGDPGDDPYDFKEGDIEYSFPTSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETDLVVLISDLENIFDEDEEELRTACPNQHTARVLVSGSEDRREGRVAVPYPSIADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPLKLPDQCYYRPSWALLPKMEHYSSLPPSHHTTFIRDGYVNVPSVGDQEYAQLSASALSVGTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPPIPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGQAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLLQQQCSQPISSLASMHLPPSCSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNMLDISMLSSQDVVRMLLSLQPYLQDAIQKKRMGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDYYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSDTLLAGAQVFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAVDTETETEKEKEKERQEEEQVDQWFTGPWAGQQHIDNLRKLKLYARACRRQLGPQLSALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGGVRDGGGGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTKTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRVRRPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHISIATAQSDEPNQTSSDKTTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2158
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.06
Grand average of hydropathy-0.436
Instability index59.17
Isoelectric point5.62
Molecular weight235317.04
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

>MDP11972
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|    1126.25|     217|     219|     301|     519|       1
---------------------------------------------------------------------------
  301-  519 (374.53/150.26)	DLPVEEPPPAPGAQGGSRDP..SHCSIPLTP........PTSPEQPCSADSGFVTTVSSVL..PAQESAM..GVTNSP....KH..S..GKKLTNQVVHQ.AWKECYLNQLQHKCSGPS....S..VTPKKEAPNGVPTWDF....T.DPEERAPCSCS..................................RLKQQKQQQQTNTSSANPPSGANTTPSSGPAL.......PPPSLPK.HKATDKPE.KADKQPKRAAAMTPF....HHRLSVGQEACLEQDSS..GGSQLGLvsLDPPLD
  547-  678 (191.07/70.99)	PLP...PTLSPHPRGG.QDP.....EVP..D........NTVGMAPC................PDGASGM..GV........................................................................M.EPSETA........................................LYAAPLGPREREAGAGWWRGFRTPRADKAEF.......RPPELP.....SDRVEvKTETQATEGVALKRLfmqtQKRFKIS.EACVREHIQ..T...LGL..LHQPGD
  680-  838 (148.51/52.99)	.......................................GDDPYDFKEGDIEYSFPTSKRLkgPCRDHS.....KRGP....K......GEEISNGALPD.GKDAMSIFSSAPKADDDSpqddD..AAAKAQNPSLTRETDLvvliS.DLENIFDEDEE..................................ELRTACPNQHTARVLV...SGSEDRREGRVAV.......PYPSIADlQRMFPTPP.SLEQHPAFSPIMT........................................
  841- 1000 (177.04/64.83)	DTPSQE.PPAPSA..GSDHPlgPLSSTQLQEyrmeveegMASPKPEDIKDFSFVYRVPSVQ..PQMGCSMfaPLRTLP....SQclP..PLKLPDQCYYRpSW..ALLPKMEHYSSLPP....ShhTTFIRDGYVNVPS.......V.GDQEYAQLSAS..................................AL.......SVGT......TG.GILPSPSPAT.......PRFSVP.......................TP.......................................
 1001- 1245 (235.10/89.28)	.....RTPRTP..RGVGTTS..GQGSVK..............QEGTGTELSSPTSTPSTSL..PMSSVAE..PHTSSPpipeAH..SlyAALLLSDSVLN.VFKD...RNFDSCCICAC....N..MNV.KGADVGVYIPDS....TlEDQYRCMCGFSaivnrrlahgtglfledeldifgrgsevgqaaerRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLlqqqcsqPISSLAS.MHL...PP.SCSCHGRQGALLQSW..maDKQWTDGSDACVECYNAlvQGQQY....VDNP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.27|      19|      20|    1719|    1738|       2
---------------------------------------------------------------------------
 1719- 1738 (29.79/24.99)	LTGFGPASTL.ESVLKSPEhP
 1741- 1760 (33.48/21.87)	LQGYSPPYILgPTRAKMPE.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.95|      19|      20|    1513|    1532|       3
---------------------------------------------------------------------------
 1513- 1532 (33.43/12.98)	PAPSSSQPPSGPGVPAEGeP
 1536- 1554 (29.07/ 7.44)	PSSGSTTTPTAAALDQPG.P
 1567- 1585 (39.46/12.98)	TTPNATPPPPPPSQPAET.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.06|      14|      19|    1658|    1673|       4
---------------------------------------------------------------------------
 1658- 1673 (21.37/14.43)	MLQtlPESMRPALVLQ
 1680- 1693 (25.69/11.62)	LLQ..PASGESPLYLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.15|      37|     266|    1761|    1797|       6
---------------------------------------------------------------------------
 1761- 1797 (72.95/41.13)	GE..VWAEIPP...RYNVLFVGYCLSHDQ.....RWILVSCTDQQGE
 2020- 2066 (57.20/30.60)	GErlLSRENPPeelKQQPLALGYYVSTAQadslpHWFWASCPQAQNQ
---------------------------------------------------------------------------




































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 MDP11972 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALK
2) ALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSA
3) DEDEEELRTACPNQHTARVLVSGSEDRREGRVAVPYPSIADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMA
4) DIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEE
5) DLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTT
6) GTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPP
7) KCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGP
8) TSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETD
9) VGAVDTETETEKEKEKERQEEEQVDQWFTGP
603
1487
776
1981
301
979
391
697
1427
646
1603
878
2032
346
1052
598
763
1457










Molecular Recognition Features






MoRF SequenceStartStop




1) GWWRGFR
606
612