<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 MDP29129

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKKCVWQGPTSAPILFPVTEEDPILCSFSRCLKADILSVWRRNQTPGRRELWIFWWGEDPNFADLIHHELTVEEDGVWENGLQYDCRTLIFKAIHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDLPTQKLIEEWKQFYPITSSLRESSDDKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQSDIPAASSVGSSHCTATYMSAHQVPTSTRDPAMSSVTLTPPTSPEEAQTVDIRSAQKWVKFSLTSDIFSADSNSHHGGKIPRKLANQVVDRVWQECNMNRTQNKRKYSATTNGVCEEEVAEKLGSWDFVESTQRTNCNCSRHKNLKQRNLGLQGQSQPTGQQQQAAPKHKTNEKQEKGDKQQKRPLTPFHHRTSLCDDVAIESDSANPRLGIRSQDGRGRFSNIRPNDITKTPQMHGTEIANSPPPPPLSPHPCDRGDEGAEAIKNPSTPQSQHFYQMPTPDSLIPPKTVEDRIDSLSQPFPPQFPEPLEPTVYVGSAVHLEHEGADVTWRYYKVPGKRDSEFLPPQLPFDKYKEEPLGVSNQENTKSVTENMVDCKKPLKVSEELVLKYIQSKNQYLTAAVSDSDQEPENDPYAFVDGDEEFSFPDYKKEKQSSEREVGKKHKAEDSGVTGLPAEGEDAMSLFSPSSKQEAQRNAAHSRTASTSLMHETDLVVSYTDLDNLFNSDEDDLTPGSKRTVNGSDDKSNKESKTGTLDPLSCINSADLHKMFPTPPSLEQHIMGFSPMNMNSKEYGALDGTSGMTLQDGNSSVLGTQFKIEADEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECIYRSSWTVGKLELLPPVQPMPFIKDGNIPSVGSAMDQEYIQIYTPQTHTPFGMSNSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPGGPASVQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNLKGADVGVYIPDPMQETQYQCPMQEAQYQCTCGFSAVMNRRFGNNSGLFLEDELDIVGRNTDCGKEVEKRFETLRVASVEHCNGGLKENEKMPDELILLIQDQCTNLFSPFGAVDQEPLPKVGPVNNLTHVEERDCCNDCCLALEHGRQFMDNMSGGKVDETLVKTTCLHRWSKRNAVDVSMLCSQDVLRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTEDSPEPLPIPTFLVGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVVCPENEALLNGAKNFFRDLTAVYESCRLGQHRPISRLLPDGIMRVGPTAAKKLSDKPVTNWFSQAANNSSDAFAKLKLYAQVCRHDLGPYLAAQPLDSSLLSQPNPVAPVSQPASSQPQVSGTTSNSTVPPSATNTVTSNAMTATSNTTLTSAVTTTSSSTLTSSASTNIGSGLTAGKPSSFPPFGNISNSSAGSMSTQGTSSQSGQQQTSQSSGLPADGTSAPASVQPHQEVCESTMERDKVGVPTDGDSHAITYPPAIVVYIVDPFTYENGEEGSQSSSVWTLGLLRCFLEMVQFLPPNIRNAVSVQIIPCQYLLQPVKNEDCYIYAQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLALENSLKSPERPECVRLYTPPFMLAPVKDKQTQLGETFGEAAQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGTVRRLGLQKLWDWCHGLVQMTSLPWRVVIGRLGRIGHGELKEWSCILSRHGLQSLSRRLKDTCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTMNMQTSQLNTPQDTSCTHILVFPTSASVQVQSSTYPIENIDLAFPTNNDGADGMGIFDLLDTGEDLDPELINILPASPTGSPVHSPGSHYPAGGEPGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELFHSKHTHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2186
PositionMiddle
OrganismLatimeria chalumnae (Coelacanth)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Coelacanthiformes> Coelacanthidae> Latimeria.
Aromaticity0.07
Grand average of hydropathy-0.436
Instability index54.42
Isoelectric point5.43
Molecular weight241251.17
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. 


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

>MDP29129
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.55|      17|      17|     513|     529|       1
---------------------------------------------------------------------------
  513-  529 (30.80/16.49)	PNDITKTPQMHGTEIAN
  533-  549 (32.75/18.10)	PPPLSPHPCDRGDEGAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     178.42|      53|     199|    1716|    1775|       2
---------------------------------------------------------------------------
  999- 1051 (95.50/56.85)	SNSGAGILPSPATPRFSA...PTPRTPRTPR.TPRGPG..GPASVQGSVKYENSDLYSP
 1716- 1774 (82.92/61.26)	CYIYAQHLKSLAFSVFTQcrrPLPTSTNVKTlTGFGPGlaLENSLKSPERPECVRLYTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     404.18|     113|     259|     553|     710|       3
---------------------------------------------------------------------------
  294-  410 (156.82/52.95)	.SSVGSSHCTATYMSAHQVPTSTRDPAM...........SSVTLT.PPTSPEEAQ.TVDIRSAqkwvkFSLTS..DifSADSN..SHHgGKIPRK...........LANQV.VDRvWQECNMNRTQNKRKYSATTNGV.CEE..EVAEKL
  554-  673 (179.14/115.44)	PSTPQSQHFYQMPTPDSLIPPKTVEDRI...........DSLSQPFPPQFPEPLEpTVYVGSA.....VHLEH..E..GADVT..WRY.YKVPGK......rdSEFLPPQLpFDK.YKEEPLGVSNQENTKSVTENMVdCKKplKVSEEL
 1608- 1693 (68.22/14.16)	PADGTSAPASVQP...HQ...EVCESTMerdkvgvptdgDSHAITYPPAI......VVYIVDP.....FTYENgeE..GSQSSsvWTL.G.....llrcflemVQFLPPNI.......................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     254.76|      79|     199|    1218|    1310|       4
---------------------------------------------------------------------------
 1218- 1310 (124.39/99.52)	PFGAVDQEPLPKVGPVNNlTHVEERDCCNdcclaleHGRQFMDNMSGGKVDETLVKTTCLHRWSKRNA...VDVSMLCSQDvlrmllSLQPVLQDA
 1424- 1505 (130.36/75.35)	PISRLLPDGIMRVGPTAA.KKLSDKPVTN.......WFSQAANNSSDAFAKLKLYAQVCRHDLGPYLAaqpLDSSLLSQPN......PVAPVSQPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.47|      21|     199|     914|     939|       6
---------------------------------------------------------------------------
  914-  934 (41.26/27.89)	VGCSMFAPLKTLPS.QCLPPIK
  942-  963 (35.21/11.97)	RSSWTVGKLELLPPvQPMPFIK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.16|      34|      38|     786|     822|       7
---------------------------------------------------------------------------
  789-  822 (57.46/34.04)	LFNSDEDDL.....TPGS.KRTVNGSDDKSNKESKTGTLD
  824-  863 (51.70/23.16)	LSCINSADLhkmfpTPPSlEQHIMGFSPMNMNSKEYGALD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.30|      21|      32|    1514|    1535|       8
---------------------------------------------------------------------------
 1514- 1535 (32.97/28.04)	TTSNSTVPPSATNTVTSnAMTA
 1547- 1567 (35.32/24.24)	TTSSSTLTSSASTNIGS.GLTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.06|      52|     225|     211|     264|      10
---------------------------------------------------------------------------
  211-  264 (88.32/58.73)	FGLNGTL..TGQSFKLSdlPTQKLIEEW.....KQFYPITSSLRESS..DDKQEEMDWEDDSL
  437-  497 (76.73/44.98)	LGLQGQSqpTGQQQQAA..PKHKTNEKQekgdkQQKRPLTPFHHRTSlcDDVAIESDSANPRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.31|      13|     199|    1184|    1199|      14
---------------------------------------------------------------------------
 1165- 1177 (22.58/11.28)	VGRNTDCG...KEVEK
 1184- 1199 (17.73/16.70)	VASVEHCNgglKENEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.99|      21|      37|    1103|    1123|      15
---------------------------------------------------------------------------
 1103- 1123 (41.63/26.53)	CVCN....MNLK.GADVGVYIPDPMQ
 1138- 1163 (30.36/17.21)	CTCGfsavMNRRfGNNSGLFLEDELD
---------------------------------------------------------------------------




































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 MDP29129 with Med13 domain of Kingdom Metazoa
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