<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 MDP04254

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHLHMAQSSPAPFQVLVSPYGLNGTLTGHAYKMSDPAARKLIEEWHCFYPMVLRKREEPREEAELGYDDDFPVAVEVIVGGVRMVYPSAFVLVSQNDIPVPQSGHGTVAQQGLGSVKDPSNCGMPLTPPTSPEQVVIGESGGVQSAASHLGSQDGGMSTMHSPKRSRKTPPKLHSHMVRRVWRECILSRAQSKRSQMSTPTREEEAAHSPAAWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPAISQPGFSAGLPSSSSLPPPASSKHKTTERQEKGDKLQKRPLVPFHHRPSVAEELCVEQDAPGQKLGLAGIDASLEVSNTRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQEAESLDPPSVPVNPALYGNGLDLQQLSTIEDRTVLVGQRLPLMAEASETALYSGLRPSYTESSDRWWQSFRLPSSEDAEFRPPELQGERFDTALDLNPESTALQRLLAQPNKRFKIWQDEQPQVQPLPFLDPSPLSQQPGDTLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDSAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPTVGTEERPPGKDGRAAGPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGVSSETVTALGMMESPVVSMVPTHLTEFRMEVEDGLGSPKPEEIKDFSYVHKVPQFQPFVGSSMFAPLKTLPSHCLLPLKTPDACLFRPSWAVPPKMEQLPMPPAASSIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNVFKDRNFDSCCICACNMNIKGADVGLYIPDSSKEDQYRCTCGFSAIVNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQSSGQSTLLPQVEGARKAPEPPVSLLLLLQNQHTQPFASLSFLDYISSANRHALPCVSWTYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHCWPHSNVLDTSMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKEFLTISPFSLPFWERLLLEPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTEELVSEWFNQPWSSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSGLLMPPKHQSPPAEAQGQATPGNAGSLPSNSGSGAPPAGSAFNPTSSSSANPTTSSSSASSGPPGSSAASAPGITQMNTTSSSGFGGGVGGQNPSAGGSSTDRTPGNVACGDTEPGQSCTQSSQDGQDSVTERERIGIPTEPDSADSHAYPPAVVIYMVDPFTYTAEEDSSSGNFWLLSLMRCYTEMLDHLPEHMRSSFILQIVPCQYMLQTMKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTEPGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRTLHVPLSVRSRKSKVSARKVGLQKLWEWCLGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQARNQCPLFLKASLHHHISVAQTDELLPARTSQRAPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNML
Length2216
PositionMiddle
OrganismMus musculus (Mouse)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Mus> Mus.
Aromaticity0.07
Grand average of hydropathy-0.394
Instability index60.91
Isoelectric point5.78
Molecular weight242786.64
Publications
PubMed=19468303
PubMed=21183079

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

>MDP04254
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     134.42|      26|      28|    1551|    1578|       1
---------------------------------------------------------------------------
  432-  460 (25.69/ 7.06)	.GPSRPPaisqpGFSAGLPSS.SSLPPPASS.
 1551- 1576 (47.19/21.56)	SGSGAPP.....AGSAFNPTS.SSSANPTTSS
 1578- 1601 (35.55/10.71)	SASSGPP.....GSSAASAPG.ITQMN..TTS
 1603- 1624 (25.99/ 7.24)	SGFGGGV.....GGQ..NPSAgGSSTDRT...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.46|      21|      22|     944|     964|       2
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  952-  973 (34.98/16.40)	PSHC.LLPLKTPDA....cLFRPSWAV
  974-  996 (24.77/ 9.26)	PPKMeQLPM.PPAA...ssIRDGYNNV
  997- 1019 (24.71/ 9.22)	PS...VGSLADPDYlntpqMNTPV.TL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.01|      18|      23|    1697|    1719|       3
---------------------------------------------------------------------------
 1696- 1714 (31.64/30.52)	WLLSLMRCYTeMLDHL.PEH
 1719- 1737 (30.36/13.14)	FILQIVPCQY.MLQTMkDEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.69|      15|      23|     830|     851|       4
---------------------------------------------------------------------------
  832-  846 (26.89/11.13)	VGTEER....PPGKDGRAA
  853-  871 (17.80/10.83)	VADLQRmfptPPSLEQHPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.89|      23|      23|     649|     671|       5
---------------------------------------------------------------------------
  546-  567 (37.53/17.04)	PISPLPPTLSPQP......RGQEAESLD
  659-  682 (32.45/13.59)	PESTALQRLLAQP....nKRFKIWQDEQ
  683-  708 (29.92/11.87)	PQVQPLPFL..DPsplsqQPGDTLGEVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.86|      26|      28|    2074|    2101|       6
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 2074- 2101 (37.05/27.71)	GsHFQhSRSQGERL...LSREAPEELKQQPL
 2104- 2132 (44.81/24.06)	G.YFV.STAKAENLpqwFWSSCPQARNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.29|      18|      28|    1129|    1146|       7
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 1129- 1146 (36.30/25.37)	CACN....MNIK.GADVGLYIPD
 1155- 1177 (25.99/15.79)	CTCGfsaiVNRKlGYNSGLFLED
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.72|      26|      27|    1029|    1054|       8
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 1029- 1054 (47.54/23.00)	GAGVLPSPATPRFSVPTPRTP.RTPRT
 1057- 1083 (41.17/18.81)	GGGTASGQGSVKYDSTDQGSPaSTPST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.84|      23|      28|    2160|    2182|       9
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 2160- 2182 (40.93/26.85)	PHPLDSKTTSDVLRFVLEQ.YNAL
 2189- 2212 (37.91/24.25)	PATQDRTSCLPVHFVVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.17|      14|      23|    1375|    1388|      10
---------------------------------------------------------------------------
 1375- 1388 (27.54/14.16)	SPEPLPI..PTLLVGY
 1396- 1411 (22.63/10.16)	SPFSLPFweRLLLEPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.52|      20|      23|      65|      84|      12
---------------------------------------------------------------------------
   65-   84 (38.38/33.16)	QANLLCVWRRDVKPDCKELW
   91-  110 (35.14/29.51)	EPNLVGVIHHELQVVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.56|      12|      22|    1230|    1241|      13
---------------------------------------------------------------------------
 1230- 1241 (22.53/11.40)	NQHTQPFASLSF
 1249- 1260 (25.03/13.51)	NRHALPCVSWTY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.87|      16|      22|    1506|    1521|      14
---------------------------------------------------------------------------
 1506- 1521 (28.29/15.80)	RHHLAPYLATLQLDSG
 1527- 1542 (29.58/16.91)	KHQSPPAEAQGQATPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.37|      18|      28|    2025|    2047|      15
---------------------------------------------------------------------------
 2025- 2047 (25.52/19.72)	SPNNDdmfvDLPFPDDmDNDIGI
 2056- 2073 (34.86/13.31)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.61|      15|      22|     894|     908|      16
---------------------------------------------------------------------------
  894-  908 (26.21/13.90)	ESPVVSMVPTHLTEF
  913-  927 (26.40/14.06)	EDGLGSPKPEEIKDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.27|      32|    1265|     156|     189|      17
---------------------------------------------------------------------------
  156-  189 (52.23/43.91)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1424- 1455 (59.04/39.75)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.05|      14|      15|     606|     619|      27
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  606-  619 (24.32/14.38)	EASETALYSGLRPS
  622-  635 (27.73/17.62)	ESSDRWWQSFRLPS
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.78|      11|      29|    1881|    1891|      28
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 1881- 1891 (24.09/11.83)	GLQKLWEWCLG
 1913- 1923 (20.69/ 9.24)	GELKDWSILLG
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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 MDP04254 with Med13 domain of Kingdom Metazoa
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