<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 MDP27485

Description Mediator of RNA polymerase II transcription subunit 13
SequenceCMLINCLVFHSTCLESCNTSKNVLKVSFYLDVLFTGSFFSFFFFFSVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEDELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVANTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAILGESGGMQSAASHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQYKRSQMSTPTLEEEPASNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTTGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPNSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWHSYRLPPCDDTEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSAQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLLMCQTTFLPQAEGTRKSQEPPISLLLLLQSQHTQPFASLSFLDYISSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSGEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGTLAPNSGSTAPPAGSAFNPTSNSSSTNPAASSSASGSSVPPVSSSASAPGINQISTTSSSGFSGSVGGQNPSTGGISTDRTQGNIGCGGDTDSGQSSSQPSQDGQESVTERERIGIPTEPDSADSHAHPPAVVIYMVDPFTYSSEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2154
PositionMiddle
OrganismCallithrix jacchus (White-tufted-ear marmoset)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Cebidae> Callitrichinae> Callithrix> Callithrix.
Aromaticity0.07
Grand average of hydropathy-0.379
Instability index58.42
Isoelectric point5.67
Molecular weight236655.08
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

>MDP27485
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.97|      24|      28|    1539|    1564|       1
---------------------------------------------------------------------------
  382-  400 (28.28/ 6.58)	NRPPTISQPGFSAGPSSSS.....
 1516- 1539 (37.53/12.27)	NPAASSSASGSSVPPVSSSASAPG
 1541- 1564 (39.16/16.82)	NQISTTSSSGFSGSVGGQNPSTGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     115.78|      28|      28|     977|    1004|       2
---------------------------------------------------------------------------
  948-  978 (37.24/14.52)	GSLADPdylNTPQMNTPVTLNS.AAPASNSGA
  979- 1006 (50.38/22.50)	GVLPSP...ATPRFSVPTPRTP.RTPRTPRGG
 1007- 1033 (28.16/ 9.00)	GTASGQ...GSVKYDSTDQGSPaSTPSTTR..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|    1070|    1094|       3
---------------------------------------------------------------------------
 1070- 1094 (51.64/34.01)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1097- 1125 (36.91/22.09)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.56|      27|      29|    1798|    1826|       4
---------------------------------------------------------------------------
 1798- 1826 (43.80/36.57)	C..VVNI.ALPNRSRRSKVSarKIGLQKLWEW
 1827- 1856 (41.76/27.71)	CigIVQMtSLPWRVVIGRLG..RLGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     534.97|     134|     136|     566|     700|       5
---------------------------------------------------------------------------
  457-  564 (114.78/50.07)	....................................DSSLEVSS.SRKYDKQMAVPSRNTSKQMNLN.PMDSPNSPISPLP.ptLSPQPrGqetESLDPPSvpvNPALYGNGlELQQLSTLDDRTVLVGQRLPLMAEVSETALYCG..I
  566-  700 (228.26/110.81)	P..SNPESSDKWWHSYrLPPCDDTEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQ.PQMQPLHFLDPLP...LSQQP.G...DSLGEVN...DPYTFEDG.DIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVT
  702-  836 (191.93/89.27)	PghSTPVPDGKNAMSI.FSSATKTDVRQDNAAGRAGSSSL...TQVTDLAPSLHDLDNIFDNSDDDElGAVSPALRSSKMPtvgTEDRP.L...GKDGRAA...VPYPPTVA.DLQRMFPTPPSLEQHPAFSPVMNYK..DGISSETVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     217.82|      65|    1266|      99|     166|       6
---------------------------------------------------------------------------
   99-  166 (104.98/87.67)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVSPYgLNGTLTGQ
 1368- 1434 (112.84/79.31)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklTDELVSEW.FNQPWSGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.68|      20|      22|     892|     912|       7
---------------------------------------------------------------------------
  892-  912 (35.03/22.34)	MFAPLKMLPSHC.LLPLKiPDA
  914-  934 (34.65/17.66)	LFRPSWAIPPKIeQLPMP.PAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.93|      26|      28|    2012|    2039|       8
---------------------------------------------------------------------------
 2012- 2039 (37.05/33.69)	GsHFQhSRSQGERL...LSREAPEELKQQPL
 2042- 2070 (44.88/29.36)	G.YFV.STAKAENLpqwFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.09|      17|      23|    1319|    1335|       9
---------------------------------------------------------------------------
 1319- 1335 (32.92/19.89)	SPEPLPI.PTLLV...GYDKD
 1340- 1360 (23.18/11.31)	SPFSLPFwERLLLdpyGGHRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.44|      21|      23|    1467|    1487|      10
---------------------------------------------------------------------------
 1467- 1487 (38.92/19.09)	LIPPKYQTPPAAAQGQATPGN
 1491- 1511 (37.51/18.09)	LAPNSGSTAPPAGSAFNPTSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.08|      17|      24|    1643|    1660|      12
---------------------------------------------------------------------------
 1643- 1660 (26.88/22.02)	WLLSLMRCyTEMLDNLPE
 1666- 1682 (31.20/19.65)	FILQIVPC.QYMLQTMKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      11|      24|    1974|    1985|      13
---------------------------------------------------------------------------
 1974- 1985 (17.73/14.53)	PFPDDmDNDIGI
 2001- 2011 (21.55/11.69)	PSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.77|      16|      28|    1574|    1589|      15
---------------------------------------------------------------------------
 1574- 1589 (30.84/19.14)	IGCGGDTDSGQSSSQP
 1603- 1618 (30.93/19.22)	IGIPTEPDSADSHAHP
---------------------------------------------------------------------------




































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 MDP27485 with Med13 domain of Kingdom Metazoa
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