<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 MDP05724

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMYMTDQYPKLDGRSLENTYTNIFALADLSGIHYRVYRPNDEQSCSIYEDPILESYNNCLRENLMCAWVRQKRMDSEPHKPEIYSNFVKELWVFWYGNEDPCSKRDHLISSDLEEISSGSWRHGLSYNTRCVLFKALHNVIERYLLTKGYVRLGKSFLQPCNSQSIRDKCQYSISFSFFLHGESTVCASLDIRRFPKFKSFTPRILSFCEKYTGKVNVVLAPHGISARLIASSQASDTSSEKELEMWKRFFPIRSVGENFNSSGSHQSSFYMDFLTPNKSSPNQQQQQGSKSDSSLKRSNSEQLPQFVNVLVGGFRMRYPTCFVLIAENQLFMMTNQQTQDLPDRRSNAFPKNKHSVLDPHGFHHPKLPLKRLPSSRRRSYISARTLQRALRSERSFMPDFDSLHVKFRLLSQVVGDESVFNPEFKSCQVPIPMHRRSGSVSRILRNFIAEVDASLGGSVNTDLTSANLKRQMSSTDPLMPKLSPQPANLMASNVGSISAGADSLPAAPNPSNAQPCHQKTSITAIKPPCLVYYLQTNPKEGGGPGPVKSKSTDRDDTHPQVTPKSPYRAITLLTYDLHHTIKEERRIACQRAVLRIEEGKGDCLPRCVVRVPPTSSHQVKNLPPPTIKSEPLGTETSWLAKQLPYQSRRPPQMHMNSLDQANAFEHSSTALCDDFQRYQRQQTHQAMRDNYVYDVYPEGTHRTLEDELYGPNMKSDTPGKAAVMRNQMKHAGGRNQMNMSGGDIPGMYQTSSSLESVLSGGPCSQPSPSDVKSLSEENRLRHKQNFASNLVQTILQNTWPIFEQESAIFPKEWQSMCPPAVQIPFSAKFKLTPEELHQVRDLERSSRPGLAFEPGTGPTNGLYDCLFLYPPRRPPHSLSSSRPQQHHPSRIISDPTDPDSTTFDLDELKGSDALKVNIILSDSLLNLFKDHNFDSCNICECTTSALGMEVDIYISSPAPPPTQPCNCGFSALVNRKFALAGNLFWEDEMEVASLSIASIDPARLHPKKSSPPPASVNVYLPVITQWMRGSLEEFGVRLLIEWLQYNESAMKFCDTRQGIFEKDAMYDYSDVCALTASALEQSACDLSTLEEMIMGNNFSTSDEKMRQLKLDEISRKEGINFHPALFRQFPSDLPSNKNDQIRLLGSVRLWLQEVIDQLESTYKVEGPLTWKAFHQLAGRGHCESSKAQPIPQFRVGGNPKNTSSVVLTSPFSLRDWDHLSLSPISRPKRVAYSAVIPFFQNQSENQLRFAETLSSFFYELSAAFENCQLGQHYPYYQPNTNHLENAFIYVQCPYPFKDENDPTSGFSPMNARQPRRHQQSGSGSHSTAALHYSLQRYKTSAINTVRKLLSERGVAMPDGSQSILTPFTGMPEMPPSSIAIIQSKISPLNGQGPLTIAYDPKADAKTDVHLVIYLIDPFTHLFDLGDEARGLATRCLAEIAGRLTSELPQSWRQRMSVQLLPMTHIVSPRSSVIGREDVGDAGLLPRVKSMALAIYSSIDRVISPTLINANRTLTGMGPAADKEVISANFQKDHVNRVYAPAYTLAHTHDLWGQWEVHPSEPLSPSSVLFVSYCLSEDSNWLLATCIDQYGTLAKQTFINIRAPDSINAPSNKTGGDGFSISTRRLALARLWDFIVSVVASTANAWRLVVGRLGRLGHGELKGWCALLSRRNLQNVNRSLRANCALCNLVNQAPTTLSNGGPTYNGKLTVTTNLTADSRVSGTCAHETPSLLSACLISTEPQSTFRLFPGSDLNTGDLGGHAGHGGHGGGGGGGGNAGGGSGSLSASGGGVGQAGGQAGQAYAGPFANGVISAAGYAPSTTHILVFPTSTSAQAQSEQDAFNITDLFCQFDEDDDHTEMCISNLDPLTTPTSAGPGRNLGNVVPGVVGTGGPCAGVSQDPNVPTGGQLASMTRSCIPPEPNTQGMSYEDACRERAKYYLQYALLPFGIPDPQSEKPSLMQQPLALGYHISTAPVGPLPDWFWAACQQTRRNNPVCLKSALHLHCTLVRVEDDAAANGGQGTASGSGHLLDSSVTCDVLRFVLESYNALSWLSYDPCVNDRRSCLPVHILSLAQLYQAAKAFSICVNQAQPLNPKDGPSKHQPDTQSYKKQLSTEKTSAAEEYQSYSRGKLD
Length2130
PositionMiddle
OrganismHymenolepis diminuta (Rat tapeworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Cyclophyllidea> Hymenolepididae> Hymenolepis.
Aromaticity0.08
Grand average of hydropathy-0.436
Instability index55.17
Isoelectric point7.40
Molecular weight235372.74
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

>MDP05724
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     303.57|     104|     136|     641|     774|       1
---------------------------------------------------------------------------
   69-  118 (55.55/15.44)	........................................................................RQKRMDSE.PHKPEIYSNFVKEL....WVFWYGNEDPCSkrdHLISSDLEEISSG
  648-  760 (173.43/131.15)	R.RPPQMHMNSLDQA...NA...FEHSSTAlcddFQRYQRQQTHQAMRDNYV..YDVYPEGTH..RTLEDELYGPNMKSDtPGKAAVMRNQMKHAggrnQMNMSGGDIPGM...YQTSSSLESVLSG
  779-  855 (74.59/26.05)	RlRHKQNFASNLVQTilqNTwpiFEQESAI....FPKEWQSMCPPAVQIPFSakFKLTPEELHqvRDLERSSR.PGLAFE.PG............................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.46|      16|      16|    1770|    1785|       2
---------------------------------------------------------------------------
 1770- 1785 (30.14/16.57)	GGGGGNAGGGSGSLSA
 1787- 1802 (30.32/16.73)	GGGVGQAGGQAGQAYA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.18|      30|     136|     913|     946|       4
---------------------------------------------------------------------------
  913-  946 (49.60/39.52)	ALKvniiLSDSLLNLF.KDHNFDSCNICECTTSAL
 1049- 1079 (51.58/31.69)	AMK....FCDTRQGIFeKDAMYDYSDVCALTASAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     250.20|      77|     136|    1435|    1515|       5
---------------------------------------------------------------------------
 1435- 1515 (121.66/87.48)	CLAEIAGRLtseLPQSWRQRMSVQLLPMTHIVSPRSSVIGREDVGDAGLLPRVKSMALA.IYSSIDRVISPTlINANRTLTG
 1573- 1650 (128.54/81.12)	CLSEDSNWL...LATCIDQYGTLAKQTFINIRAPDSINAPSNKTGGDGFSISTRRLALArLWDFIVSVVAST.ANAWRLVVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.10|      16|      16|    1272|    1287|       6
---------------------------------------------------------------------------
 1272- 1287 (31.99/17.95)	HYPYYQPNTNHLENAF
 1291- 1306 (31.11/17.23)	QCPYPFKDENDPTSGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.85|      14|      18|    1356|    1369|       7
---------------------------------------------------------------------------
 1356- 1369 (27.86/15.77)	MPDGS....QSILTPFTG
 1373- 1390 (21.99/10.66)	MPPSSiaiiQSKISPLNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.54|      10|      16|     604|     613|       8
---------------------------------------------------------------------------
  604-  613 (19.50/10.58)	LPRCVVRVPP
  622-  631 (19.04/10.11)	LPPPTIKSEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.31|      14|      16|    1860|    1874|       9
---------------------------------------------------------------------------
 1860- 1874 (21.40/17.53)	ISNLDPLTTPTsAGP
 1878- 1891 (25.91/16.02)	LGNVVPGVVGT.GGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.71|      15|      16|    1899|    1914|      10
---------------------------------------------------------------------------
 1899- 1914 (24.29/18.49)	PNVPtGGQLASMTRSC
 1916- 1930 (30.42/18.53)	PPEP.NTQGMSYEDAC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.63|      19|      21|     384|     404|      11
---------------------------------------------------------------------------
  384-  402 (33.94/25.33)	RTLQRALRSERSFMPDFDS
  408-  426 (32.69/16.36)	RLLSQVVGDESVFNPEFKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.83|      34|     138|     334|     374|      16
---------------------------------------------------------------------------
  339-  373 (62.37/51.84)	QDLPDRRSNAFPKNKHSVL..DPHGFH...HPKL.PLKRlP
 1188- 1227 (49.46/21.09)	QPIPQFRVGGNPKNTSSVVltSPFSLRdwdHLSLsPISR.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.19|      12|      19|    1105|    1116|      18
---------------------------------------------------------------------------
 1105- 1116 (20.39/12.25)	MRQLKLDEISRK
 1126- 1137 (22.80/14.71)	FRQFPSDLPSNK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.12|      19|    1401|     532|     550|      19
---------------------------------------------------------------------------
  532-  550 (36.87/19.78)	YYLQTNPKEGGGPGPVKSK
 1936- 1954 (35.25/18.54)	YYLQYALLPFGIPDPQSEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.30|      43|     844|     158|     202|      21
---------------------------------------------------------------------------
  158-  202 (71.79/53.73)	QPCNS..QSIRDKcQYSISFSFFLHGESTVC....ASLDIRRF.PKfKSFTP
  963- 1012 (65.51/38.92)	QPCNCgfSALVNR.KFALAGNLFWEDEMEVAslsiASIDPARLhPK.KSSPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.00|      19|     844|     234|     262|      22
---------------------------------------------------------------------------
  234-  262 (25.55/35.20)	ASDTSSEKELEMwkrffpirsvGENFNSS
 1083- 1101 (35.45/20.12)	ACDLSTLEEMIM..........GNNFSTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.91|      13|      21|    1393|    1405|      26
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 1393- 1405 (22.88/15.30)	PLTIAYDPKADAK
 1417- 1429 (24.04/16.54)	PFTHLFDLGDEAR
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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 MDP05724 with Med13 domain of Kingdom Metazoa
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