<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 MDP27319

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSYTPLLRWRGGWRRLAECLGVVAATVWFSVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEERKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVSQNVVGTGGHIVVGQHGVGSMKDPSHCGMPLTPPTSPEQAIIGEGGGPLSTVGHLAAQEGMATMHSPKRSGEISPKLHSHMVHRVWKECILNRTQPKRSQVSAPHLEEEATSEPPTPPSWGFVDPAQRASCSCSRHKLFKQRCAVGPSRPPSISQPGFTIGPSSSSSLPPPASSKHKTTERPEKGDKLQKRPVMPFHHRPSVGEELCMEQDAPGQKLGLAGVDSSLEVPSSRKYDKQMAVPSRNTNKQMHLNPMDSPHSPISPLPPTLSPQPRGQEAESLDPPSIPVNPALYSNGLELQPLSNLDDRTVLVGQRLPLMAEVSETALYCGIVPPNYESSDKWHSYHLPPSDDPEFRPPELQSEQYDVKIEINTDSSALKRLLAQPNKRFKIWEDKQPQGQAGYLDRSPRMQQPSESLGDASDPYTFEDGDIKYSFTVNKKCKLGTDKDLLKKNKSEDGFGTKEIPPPGHSTPVPDGKDAMSIFSSAPKTDVRQESAAGRAGPSSLTQVTDLAPSLHDLDNIFDNSDEDELGAASPALRSSKIPTVGTEDRPLGKDGRMAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMASTQLTEFKMEVEDGLGSPKPEEIKDFSYVHQVPTLQPFVGSSLFAPLKMLPSQCLLPLKVPDACLFRPSWAAPPKIEQLPLPPAAAFVRDGYNNVPSVGSLADQDYLNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDGTEQGSPASTPSTTRPLSSVEPATTQPVPEAHSLYVTLILSDSVLNVFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYHSGLFIEDEVDIFGKNSDLGQAAERRLMMCQTAFLPQMEGSRKAQEPPVSLLLLLQNQHTQPFAALSCLGCISPSHHHTLPGTHWSYDRVQADHNDSWTECVNALEQGRQYVDNPTGGRVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICRGLRDGIMRVGKTVTAKLADELVSEWFSQPWSSEDSDNHSRLRLYAQVCRHHLAPYLATLQLDSSLLVPPKYPSSPPAAGAAGAAAAQTPAAPGSAGPVASNSGCSSGPGAPPAGTSTSSSGGTSVTASSSGAGATPGSTASSSGLSSGPGQTPSTGTSTADRAQSSLGSGGEAEPGQNSSQQPPPEGPDSVTERERIGIPTEPESADSQTYPPAVVIYMVDPFTYTAEDESTSANFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKVSPRKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEACRMCGLSAADSPSILSACLVAMEPQGAFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQMDELLPPRTSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2128
PositionMiddle
OrganismMonodelphis domestica (Gray short-tailed opossum)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Didelphimorphia> Didelphidae> Monodelphis.
Aromaticity0.07
Grand average of hydropathy-0.385
Instability index62.93
Isoelectric point5.76
Molecular weight232570.50
Publications
PubMed=17495919

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27319
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     129.13|      25|      27|    1479|    1503|       1
---------------------------------------------------------------------------
  953-  973 (30.02/ 9.09)	ASNSGAGVLPSPATPRFSV....P..T
 1461- 1479 (30.13/ 9.15)	AAGAAAAQTPAAP......GSAGP..V
 1480- 1506 (44.45/17.21)	ASNSGCSSGPGAPPAGTSTSSSGGtsV
 1508- 1525 (24.54/ 6.00)	AS....SSGAGATP.GSTASSSG....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     124.02|      27|      27|     264|     290|       2
---------------------------------------------------------------------------
  227-  260 (31.75/13.05)	GTGGhivvgqhgvGSM.KDPSHC....GMplTPPTSPEQ
  264-  290 (49.14/24.28)	GEGG.........GPL.STVGHLAAQEGM..ATMHSPKR
  292-  319 (43.12/20.39)	GEIS.........PKLhSHMVHRVWKECI..LNRTQPKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.31|      24|      28|    1530|    1556|       3
---------------------------------------------------------------------------
 1530- 1555 (37.27/25.22)	PG...QTPSTG.TSTADRAQssLGSGGEAE
 1558- 1585 (35.04/13.13)	QNssqQPPPEGpDSVTERER..IGIPTEPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.34|      25|      28|    1050|    1074|       4
---------------------------------------------------------------------------
 1050- 1074 (52.19/31.18)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1077- 1105 (38.15/20.86)	NEDQYrCTCGFSaiMNRKlGYHSGLFIED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.37|      12|      20|     867|     885|       6
---------------------------------------------------------------------------
  867-  880 (18.24/26.02)	PTLQPfvGSSLFAP
  891-  902 (24.12/ 8.05)	PLKVP..DACLFRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.11|      15|      21|     389|     409|       7
---------------------------------------------------------------------------
  392-  409 (20.70/19.04)	PASSKHkttERPEKGDKL
  413-  427 (28.41/ 8.17)	PVMPFH...HRPSVGEEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.51|      14|      21|    1299|    1312|       9
---------------------------------------------------------------------------
 1299- 1312 (27.59/17.77)	SPEPLPI..PTLLVGY
 1320- 1335 (22.92/13.00)	SPFSLPFweRLLLDPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.29|      19|      21|    1000|    1018|      11
---------------------------------------------------------------------------
 1000- 1018 (34.35/18.97)	TEQGSP.ASTPSTTRPLS.SV
 1022- 1042 (24.93/11.33)	TTQPVPeAHSLYVTLILSdSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.80|      12|      28|     473|     484|      12
---------------------------------------------------------------------------
  473-  484 (24.80/12.98)	NPMDSPHSPISP
  499-  510 (23.00/11.34)	ESLDPPSIPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.84|      23|      27|    2072|    2094|      13
---------------------------------------------------------------------------
 2072- 2094 (40.93/31.29)	PHPLDSKTTSDVLRFVLEQ.YNAL
 2101- 2124 (37.91/28.28)	PATQDRTSCLPVHFVVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.04|      23|      27|    1965|    1989|      14
---------------------------------------------------------------------------
 1966- 1989 (38.92/25.61)	HSSPN.....SSPVPSPGSPSGIGVGsHF
 1991- 2018 (34.12/13.11)	HSRSQgerllSREAPEELKQQPLALG.YF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.96|      10|      20|     344|     353|      15
---------------------------------------------------------------------------
  344-  353 (18.18/ 6.48)	VDPAQRASCS
  366-  375 (19.78/ 7.76)	VGPSRPPSIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.66|      17|      20|    1813|    1830|      16
---------------------------------------------------------------------------
 1813- 1830 (25.98/25.15)	WRVVIGR..LGRLGHgELKD
 1831- 1849 (23.68/15.77)	WSILLGEcsLQTISK.QLKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.55|      17|     539|     903|     919|      18
---------------------------------------------------------------------------
  903-  919 (32.01/18.02)	SWAAPPKIEQLP..........LPPAA
  925-  951 (20.54/ 8.45)	GYNNVPSVGSLAdqdylntpvtLNSAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.12|      10|      27|     190|     199|      20
---------------------------------------------------------------------------
  190-  199 (17.47/11.01)	DDFPVAVEVI
  217-  226 (17.65/11.22)	NDIPVSQNVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.08|      13|      27|     637|     649|      21
---------------------------------------------------------------------------
  637-  649 (24.96/15.73)	LGDASD...PYTFEDG
  663-  678 (18.12/ 9.13)	LGTDKDllkKNKSEDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.27|      32|    1262|      83|     116|      22
---------------------------------------------------------------------------
   83-  116 (52.23/45.90)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1348- 1379 (59.04/41.56)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.62|      10|      16|    1155|    1164|      23
---------------------------------------------------------------------------
 1155- 1164 (18.60/ 9.02)	QHTQPFAALS
 1174- 1183 (22.02/12.17)	HHTLPGTHWS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.59|      13|      32|     710|     722|      24
---------------------------------------------------------------------------
  710-  722 (22.86/12.63)	DVRQESAAGRAGP
  743-  755 (22.73/12.51)	DNSDEDELGAASP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.83|       9|      23|     553|     562|      25
---------------------------------------------------------------------------
  553-  562 (15.59/ 9.83)	PPNYEsSDKW
  577-  585 (17.24/ 6.00)	PPELQ.SEQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.28|      20|      23|    1890|    1909|      26
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 1890- 1909 (32.62/17.59)	VFGRSTALNLQSSQLNTPQD
 1915- 1934 (33.66/18.39)	ILVFPTSSTIQVAPANYPNE
---------------------------------------------------------------------------




































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 MDP27319 with Med13 domain of Kingdom Metazoa
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