<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 MDP20988

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYNDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVAGAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAIIGDSGGTQSAVSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPAISQPGFSAGPSSSSSLPPPASKHKTTERPEKGDKLQKRPLIPFHHRPSVADEFCVEQDTPGQKLGLGGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGVRPSNPESSDKWWHSYRLPRIDDAEFRPPELQGDRCDAKMEVNSESTALQRLLAQPNKRFKIWQEKQPQMQPLHFLDPLPLAQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGAEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEVKDFSYVHKAPTFQPFVGSSTFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAAIFNRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRRLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGCDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQSPPAAAQGQATPGNTGPLASNSGSAAPSAGSAFNPTSNSTSGNPAASSSASGSSVPPVSSSAPAAVVNQASTTSSSGFSASVGGQNPSTGASSADRTQGNMGCGGDTEPGQSSSQSSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTADEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length1984
PositionMiddle
OrganismEnhydra lutris kenyoni
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Mustelidae> Lutrinae> Enhydra.
Aromaticity0.07
Grand average of hydropathy-0.413
Instability index59.14
Isoelectric point5.65
Molecular weight216883.54
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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. 


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

>MDP20988
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|    1014.17|     205|     626|      83|     291|       1
---------------------------------------------------------------------------
   79-  285 (341.12/156.79)	IT......................vgQQGLGSVKDPSNC..GMPLTPPTSPEQAIIGDSGGTQSAVSHLGSQDG.GMITMHSP.....KRSGKIPP.KLHNHMVHRVWKECILNRTQSKR....SQMSTPTLEEEP.ANNPATWDFVDP.............TQRVSCSCSRHKL.LKRCAVG...................P....NRPPAISQPGFSAGPSSSSSLP.PP..ASKHKTTERPEKGDKL..QKRP.LIP.FHHRPSVADEFCV...E...QDTPGQKLGLGG
  286-  480 (222.30/103.43)	IDsslevsssrkydkqmavpsrntskQMNLNPMDSPHSP..ISPLPPTLSP....................QPR.GQETESLD.....PPSVPVNP.ALYGNGLELQQLSTLDDRTVLVG....QRL..PLMAE...VSETALYCGVRP.............SNPESSDKWWHSYrLPRIDDA...................E....FRPPELQGDRCDAKMEVNS....ES..TALQRLLAQPNKRFKIwqEKQPqMQP.LH....FLDPLPL...A...QQ.PGD......
  482-  678 (208.49/91.85)	.............................LGEVNDPYTFedGDIKYIFTANKKC...KQGTEKDSLKKNKSEDGfGTKDVTTP.....GHSTPVPDgKNAMSIFSSATKTDV..RQDNAA....GRAGSSSLTQVT.DLAPSLHDL.................DNIFDNSDDDEL....GAVS...................PalrsSKMPTVGAEDRPLGKDGRAAVPyPPtvADLQRMFPTP...PSL..EQHPaFSPvMNYKDGISSETVT...AlgmMESPMVSM....
  691-  922 (242.27/108.19)	..........................EDGLGSPKPEEVK..DFSYVHKAPTFQPFVGSS..TFAPLKMLPSQ...CLLPLKIPdaclfRPSWAIPP.KIEQLPMP...PAAIFNRDGYNNvpsvGSLADPDYLNTPqMNTPVTLNSAAPasnsgagvlpspaTPRFSVPTPRTPR.TPRTPRGggtasgqgsvkydstdqgsP....ASTPSTTRPLNSVEPATMQPIP.EA..HSLYVTL.......IL..SDSV.MNI.FKDRN..FDSCCIcacN...MNIKGADVGLYI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.69|      21|      24|    1333|    1355|       2
---------------------------------------------------------------------------
 1333- 1353 (37.35/15.30)	G..SAFNPTSNSTSG...NPAASSSA
 1355- 1378 (27.89/ 8.27)	G..SSVPPVSSSAPAavvNQASTTSS
 1393- 1418 (27.45/ 8.06)	GasSADRTQGNMGCGgdtEPGQSSSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.69|      27|      29|    1628|    1656|       3
---------------------------------------------------------------------------
 1628- 1656 (44.42/32.93)	C..IVNI.ALPNRSRRSKVSarKIGLQKLWEW
 1657- 1686 (42.27/25.03)	CigIVQMtSLPWRVVIGRLG..RLGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.20|      20|      24|    1149|    1171|       4
---------------------------------------------------------------------------
 1152- 1171 (37.73/28.47)	PLPI.PTLLV...GCDKD..FLTISP
 1173- 1198 (23.47/ 6.88)	SLPFwERLLLdpyGGHRDvaYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.08|      23|      26|    1514|    1539|       5
---------------------------------------------------------------------------
 1517- 1539 (45.78/34.05)	YIQYLKSM..AFSVYCQCR...RPLPTQ
 1541- 1568 (28.29/10.80)	HIKSLTGFgpAASIEMTLKnpeRPSPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.07|      18|      29|    1793|    1815|       6
---------------------------------------------------------------------------
 1793- 1815 (24.82/23.46)	SPNNDdmfvDLPFPDDmDNDIGI
 1824- 1841 (34.25/15.83)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.22|      22|      28|    1848|    1869|       8
---------------------------------------------------------------------------
 1848- 1869 (36.81/23.36)	SRSQGERL...LSREAPEELKQQPL
 1876- 1900 (36.41/23.00)	STAKAENLpqwFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.15|      12|      28|     942|     953|       9
---------------------------------------------------------------------------
  942-  953 (21.96/12.15)	NRRLGYNSGLFL
  971-  982 (23.19/13.24)	ERRLMMCQTTFL
---------------------------------------------------------------------------




































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 MDP20988 with Med13 domain of Kingdom Metazoa
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