<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 MDP27886

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHLHMAQSSPAPFQVLVSPYGLNGTLTGHAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSIGSSGGHVTVGQQGLGSVKDPSNCGLPLTPPTSPEQAVIGESGGMQGAASHLGSQDGGMITMHSPKRSGKIPPKLHSHMVHRVWKECILNRTQSKRNQMSTPTLEEEPANSPATWDFVDPTQRVSCSCSRHKLLKRATGPTRPPTISQPGFSAGPSSSSSLAPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTAGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSSLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWQSFRLPSSDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQTQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGSEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDEELGAVSPALRSSKIPAVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSIVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPPFQPFLGSSMFAPLRMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPTATFIRDGYNNVPSVGSLADPDSLNTPQMSTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLAYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQVEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNNRQTLPCVSWSYDRVQADNNDCWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHAWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICRVLRDGIMRVGKTVAQKLTNELVSEWFNQPWSSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQNSPAAAQGQATPGNAGPLASNSGSAAPPAGSAYNPTSNGSSTNPAASGSASGSSVPPVSSSTSVPGINQISSTSSSGFSASVGGQNPSTGGSSTDRTQGNMGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYAEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASMEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETLGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2076
PositionMiddle
OrganismOryctolagus cuniculus (Rabbit)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Lagomorpha> Leporidae> Oryctolagus.
Aromaticity0.07
Grand average of hydropathy-0.409
Instability index58.67
Isoelectric point5.69
Molecular weight227176.04
Publications
PubMed=21993624

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

>MDP27886
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     143.51|      26|      28|    1422|    1447|       1
---------------------------------------------------------------------------
 1391- 1418 (37.02/16.69)	PPKYQNSP.AAAQGQAT.PGNAGplaSNS.G
 1422- 1447 (48.31/24.47)	PPAGSAYN.PTSNGSSTNPAASG...SAS.G
 1451- 1478 (26.98/ 9.77)	PPVSSSTSvPGINQISS.TSSSG..fSASvG
 1479- 1499 (31.21/12.69)	...GQ..N.PSTGGSSTDRTQGN...MGC.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     151.58|      25|      26|     877|     901|       2
---------------------------------------------------------------------------
  177-  195 (25.82/ 6.92)	...GLG.................SVKDPS.NCGLPLTP..PT
  308-  328 (34.14/11.55)	TISQPG.................FSAGPSSSSS..LAP..PA
  877-  895 (24.96/ 6.45)	.......................SLNTPQMSTPVTLNSAAPA
  896-  923 (39.62/14.58)	SNSGAG..............vlpSPATPRFSVPTPRTPRTPR
  924-  963 (27.03/ 7.60)	TPRGGGtasgqgsvkydstdqgsPASTPSTTRP..LNSVEPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.86|      27|      28|    1936|    1963|       3
---------------------------------------------------------------------------
 1936- 1963 (41.86/28.86)	HFQhSRSQGERL...LSREAPEELKQQPLAL
 1965- 1994 (46.00/26.79)	YFV.STAKAENLpqwFWSSCPQAQNQCPLFL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.73|      25|      28|     992|    1016|       4
---------------------------------------------------------------------------
  992- 1016 (51.47/34.55)	NFDSC.CICACN..MNIKGA.DVGLYIPD
 1019- 1047 (35.25/21.18)	NEDQYrCTCGFSaiMNRKLAyNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     192.14|      49|     466|     227|     275|       5
---------------------------------------------------------------------------
  227-  275 (89.29/53.77)	SPK.RSGKIPP.KLHSHMVHRVWKECI.LNRTQSKRNQM..STPTLEEEPANSP
  691-  744 (71.72/41.50)	SPAlRSSKIPAvGTEDRPLGKDGRAAVpYPPTVADLQRMfpTPPSLEQHPAFSP
  830-  851 (31.14/13.16)	.......KIP.............DACL.FRPSWA.......IPPKIEQLP....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.56|      27|      29|    1720|    1748|       6
---------------------------------------------------------------------------
 1720- 1748 (43.80/32.49)	C..VVNI.ALPNRSRRSKVSarKIGLQKLWEW
 1749- 1778 (41.76/24.62)	CigIVQMtSLPWRVVIGRLG..RLGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.95|      23|      24|    1241|    1263|       8
---------------------------------------------------------------------------
 1241- 1263 (41.19/24.35)	SPEPLPIPTLLVGY....DKDFLTISP
 1264- 1290 (37.75/21.64)	FSLPFWERLLLDPYgghrDVAYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     144.33|      48|     135|     383|     451|      10
---------------------------------------------------------------------------
  383-  436 (78.02/39.76)	EVSSSRKY........................DKQMAVPSRNTSKQMNL.............NPMDSPHSPISPLPptLSPQPrGqetESL
  490-  574 (66.31/32.61)	NPESSDKWwqsfrlpssddaefrppelqgercDAKMEVNSESTALQRLLaqpnkrfkiwqdkQPQTQPLHFLDPLP..LSQQP.G...DSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.07|      18|      28|    1885|    1907|      12
---------------------------------------------------------------------------
 1885- 1907 (24.82/26.53)	SPNNDdmfvDLPFPDDmDNDIGI
 1916- 1933 (34.25/17.94)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.77|      10|     466|    1102|    1121|      13
---------------------------------------------------------------------------
 1114- 1124 (16.52/16.27)	NNRQTLPC.vSW
 1133- 1144 (16.25/ 7.34)	NNDCWTECfnAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.79|      11|      36|     159|     169|      14
---------------------------------------------------------------------------
  159-  169 (21.86/11.81)	PVPQSIGSSGG
  197-  207 (20.93/10.96)	PEQAVIGESGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.15|      26|    1265|      29|      55|      15
---------------------------------------------------------------------------
   29-   55 (45.39/35.88)	LSCAFTFFlHGESNVCTSVEIAQHQPI
 1296- 1321 (48.77/33.70)	LEGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.12|      20|      24|    1837|    1856|      16
---------------------------------------------------------------------------
 1837- 1856 (33.45/20.41)	VFGRSTALNMQSSQLNTPQD
 1862- 1881 (33.67/20.60)	ILVFPTSSTIQVAPANYPNE
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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 MDP27886 with Med13 domain of Kingdom Metazoa
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