<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 MDP21133

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSGASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQVLIGESGGTQSAVSHLGSQEGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQVSTPTLEEEPANSPATWDFVDPTQRVSCSCSRHKLLRRCAAGPNRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKRWHSYCLPPSDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLTQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRTAVPYPPIADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVPTQLTEFRMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPLKILPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIVNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMLCQTTFLPQLEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQALPCVSWSYDRVQADNNDYWTECFTALEQGRQYVDNPTGGKVDEALVRSATAHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFSQPWGSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAQGQATPGNAGPLASNSGSAVPPAGSAFNPTSNGSSANPAASSSAPGSSVPPVSSSSSAPGINQMSTTSSSGFSGSVGGQNPSTGGSSADRTQGNIGCGGDTEPGQSSAQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTSEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTARAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2209
PositionMiddle
OrganismTrichechus manatus latirostris (Florida manatee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Afrotheria> Sirenia> Trichechidae> Trichechus.
Aromaticity0.07
Grand average of hydropathy-0.385
Instability index58.84
Isoelectric point5.61
Molecular weight242475.54
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

>MDP21133
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.36|      24|      28|    1532|    1559|       1
---------------------------------------------------------------------------
 1532- 1559 (37.88/24.63)	PAAQGqaTPGNagPLASNS..GSAVPPAGS
 1563- 1588 (41.48/16.96)	PTSNG..SSAN..PAASSSapGSSVPPVSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.47|      22|      28|    1612|    1639|       2
---------------------------------------------------------------------------
 1612- 1637 (33.30/29.16)	GQNPSTGG..SSADRTQgnIGCGgdTEP
 1641- 1664 (36.16/13.33)	SAQPSQDGqeSVTERER..IGIP..TEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     151.52|      28|      28|    1033|    1060|       3
---------------------------------------------------------------------------
  406-  445 (22.91/ 6.61)	....ANSPATWDFVDPTQRVScscsrhkllrrcaagpnR.PPTIS
  446-  472 (41.13/19.33)	QPGFSAGPSSSS.SLPPPASS.................KHKTTER
 1033- 1060 (50.23/25.69)	GAGVLPSPATPRFSVPTPRTP.................RTPRTPR
 1061- 1089 (37.26/16.63)	GGGTASGQGSVKYDSTDQGSP................aSTPSTTR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.40|      20|      21|     948|     968|       4
---------------------------------------------------------------------------
  948-  968 (32.92/21.04)	MFAPLKILPSQC.LLPLKiPDA
  970-  990 (35.48/18.41)	LFRPSWAIPPKIeQLPMP.PAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.39|      14|      16|     611|     625|       5
---------------------------------------------------------------------------
  611-  625 (21.75/15.32)	EVSETAL..YCgIRPSN
  627-  642 (24.64/12.26)	ESSDKRWhsYC.LPPSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.98|      14|      16|     556|     569|       6
---------------------------------------------------------------------------
  556-  569 (27.17/14.23)	PPTLSPQP..RGQETE
  573-  588 (22.81/10.42)	PPSVPVNPalYGNGLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.01|      18|      21|    1686|    1706|       7
---------------------------------------------------------------------------
 1686- 1706 (28.13/30.30)	YTSEEDSTSgnfWLLSLMRC.Y
 1712- 1730 (29.88/20.30)	NLPEHMRNS...FILQIVPCqY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     497.26|     160|     542|     684|     876|       8
---------------------------------------------------------------------------
  693-  876 (235.09/226.91)	LHFLD........PLPLTQQPGDSLGEVNDPYTFEdgdikyIFTANKKCKQGTekDSLKKNKSEDGFgTKDVTtpGHSTPvpdGKNAMSIFSSATKTDVR.........QDNAAGRAGSGSLTQVTDLAPSLhDLDNIFDNSDDDELGA.VSPalRSSKMPT..VGTEdrplgKDGRTAVPYP.PIadLQRMFPTPPSLEQHPAF
 1239- 1419 (262.17/165.28)	LSFLDyissnsrqALPCVSWSYDRVQADNNDYWTE......CFTALEQGRQYV..DNPTGGKVDEAL.VRSAT..AHSWP...HSNVLDISMLSSQDVVRmllslqpflQDAIQKKRTGRTWENIQHVQGPL.TWQQFHKMAGRGTYGSeESP..EPLPIPTllVGYD.....KDFLTISPFSlPF..WERLLLDPYGGHRDVAY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.90|      28|      28|    2067|    2094|       9
---------------------------------------------------------------------------
 2067- 2094 (47.71/27.92)	GSHFQHSRSQG.ERLLSREAPEELKQQPL
 2097- 2125 (50.19/29.81)	GYFVSTARAENlPQWFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.09|      18|      28|    1133|    1157|      10
---------------------------------------------------------------------------
 1133- 1150 (36.36/32.18)	CACNM....NIK.GADVGLYIPD
 1159- 1181 (26.73/ 8.27)	CTCGFsaivNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.57|      30|     542|     330|     359|      11
---------------------------------------------------------------------------
  330-  359 (52.50/31.86)	SPEQV....LIGESGGTQSAVSHLGSQEGGMITM
  877-  904 (49.78/29.79)	SP..V....MNYKDGISSETVTALGMMESPMVSM
  906-  928 (19.29/ 6.57)	.PTQLtefrMEVEDG........LGSPKPEEI..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.41|      14|      17|     225|     240|      13
---------------------------------------------------------------------------
  225-  238 (24.00/21.21)	YKMSDPATRKLIEE
  243-  256 (23.41/10.25)	YPMVLKKKEELKEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.37|      18|      28|    2018|    2040|      15
---------------------------------------------------------------------------
 2018- 2040 (25.52/25.05)	SPNNDdmfvDLPFPDDmDNDIGI
 2049- 2066 (34.86/16.95)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.55|      10|     911|     180|     189|      16
---------------------------------------------------------------------------
  180-  189 (19.55/11.25)	SVEIAQHQPI
 1093- 1102 (20.00/11.70)	SVEPATMQPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.95|      25|      25|      60|      84|      17
---------------------------------------------------------------------------
   60-   84 (48.05/43.95)	FIRCLQANLLCVWRRDVKPDCKELW
   86-  110 (47.90/43.78)	FWWGDEPNLVGVIHHELQVVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.56|      12|      27|     363|     374|      21
---------------------------------------------------------------------------
  363-  374 (22.31/13.99)	KRSGKIPPKLHN
  392-  403 (20.25/11.82)	KRSQVSTPTLEE
---------------------------------------------------------------------------




































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 MDP21133 with Med13 domain of Kingdom Metazoa
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