<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 MDP22038

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMKHYGVCSVSKKKYQNHCNFFVFFQAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVAGAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPAISQPGFSAGPSSSSSLPPPASKHKTTERPEKGDKLQKRPLIPFHHRPSVADEFCMEQDTPGQKLGLAGMDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGVRPSNPESSDKWWHSYRLPPIDDAEFRPPELQGDRCDAKMEVNSESTALQRLLAQPNKRFKIWQEKQPQMQPLHFLDPLPLAQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPAVGAEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEVKDFSYVHKVPSFQPFVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAAIFNRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFVPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQSPPAAAQGQATPGNTGPLASNSGSAAPSAGSAFNPTSNSSSGNPAASSSASGSSVPPVSSSAPAPVINQISTTSSSGFSASVGGQNPSTGASSADRTQGNIGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTADEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2211
PositionMiddle
OrganismUrsus maritimus (Polar bear) (Thalarctos maritimus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Ursidae> Ursus.
Aromaticity0.07
Grand average of hydropathy-0.390
Instability index58.23
Isoelectric point5.77
Molecular weight243254.73
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

>MDP22038
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     197.05|      28|      28|    1034|    1061|       1
---------------------------------------------------------------------------
  974- 1010 (25.58/ 9.78)	....PSWAIP.PKIE....QLPMPPAaifnrdgynnvpSVGSLADP
 1014- 1041 (36.67/18.56)	NT..PQMNTPVTLNS....AAPASNS............GAGVLPSP
 1042- 1069 (44.82/25.00)	AT..PRFSVPTPRTP....RTPRTPR............GGGTASGQ
 1563- 1586 (26.17/10.25)	......FNPTSNSSS....GNPAASS............SASGSSVP
 1587- 1613 (35.01/17.24)	PV..SS.SAPAPVIN....QISTTSS............SGFSASVG
 1642- 1675 (28.81/12.34)	SSsqPSQDGQESVTEreriGIPTEPD............SADSQAYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     171.57|      54|     626|    1450|    1510|       2
---------------------------------------------------------------------------
 1450- 1510 (77.40/66.83)	LGQHKPicKVLRDGIMRVGKTVAQKLTDELvSEWFnqpWSS.EENDNHSRLKLYAQVcRHHL
 2083- 2137 (94.17/54.90)	LSREAP..EELKQQPLALGYFVSTAKAENL.PQWF...WSScPQAQNQCPLFLKASL.HHHI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|    1127|    1151|       3
---------------------------------------------------------------------------
 1127- 1151 (51.64/41.95)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1154- 1182 (36.91/27.25)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.69|      12|      28|     543|     554|       4
---------------------------------------------------------------------------
  543-  554 (24.80/11.44)	NPMDSPHSPISP
  569-  580 (22.89/ 9.87)	ESLDPPSVPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.93|      20|      20|    1688|    1707|       5
---------------------------------------------------------------------------
 1688- 1707 (37.33/27.60)	YTADEDSTSG...NFWLLSLMRC
 1708- 1730 (31.61/21.94)	YTEMLDNLPEhmrNSFILQIVPC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.51|      14|      20|    1376|    1389|       6
---------------------------------------------------------------------------
 1376- 1389 (27.59/14.79)	SPEPLPI..PTLLVGY
 1397- 1412 (22.92/10.85)	SPFSLPFweRLLLDPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.64|      15|      28|    1850|    1876|       7
---------------------------------------------------------------------------
 1850- 1864 (27.99/ 8.40)	ELLETC..IVNI.ALPNR
 1879- 1896 (24.65/26.58)	KLWEWCigIVQMtSLPWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     216.32|      67|     111|     322|     394|       8
---------------------------------------------------------------------------
  322-  394 (108.94/83.99)	CGM.PLTPPtSPEQAviGESGGTQSAvSHLGSQDGGMITMHSPKRSGKIP..PKLHNHmvHR..VWKE.CILNRTQSKR
  435-  507 (107.38/63.57)	CAVgPNRPP.AISQP..GFSAGPSSS.SSLPPPASKHKTTERPEKGDKLQkrPLIPFH..HRpsVADEfCMEQDTPGQK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.41|      14|      18|     226|     241|      12
---------------------------------------------------------------------------
  226-  239 (24.00/22.16)	YKMSDPATRKLIEE
  244-  257 (23.41/10.71)	YPMVLKKKEELKEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.01|      16|      18|     889|     904|      13
---------------------------------------------------------------------------
  889-  904 (27.45/17.82)	SETVTALGM.MESPMVS
  907-  923 (22.56/13.19)	STQLTEFKMeVEDGLGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.90|      15|      20|    1526|    1540|      14
---------------------------------------------------------------------------
 1526- 1540 (29.17/15.38)	PPKYQSPPAA.AQGQA
 1547- 1562 (20.73/ 8.49)	PLASNSGSAApSAGSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     242.93|      75|    1186|     794|     880|      15
---------------------------------------------------------------------------
  794-  880 (105.23/97.26)	SSSLTQVTDlAPSLHDLdnIFDNSDDDElgaVSPAlrssKMPAVGAEDrPLGKDGRAAVPYPPTVADLQRMFPTpPSLEQHPAFSPV
 1983- 2057 (137.71/84.82)	SSQLNTPQD.ASCTHIL..VFPTSSTIQ...VAPA....NYPNEDGFS.PNNDDMFVDLPFPDDMDNDIGILMT.GNLHSSPNSSPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.52|      17|    1186|      69|      85|      16
---------------------------------------------------------------------------
   69-   85 (33.29/21.79)	LLCVWRRDVKPDCKELW
   95-  111 (29.23/18.17)	LVGVIHHELQVVEEGLW
---------------------------------------------------------------------------




































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 MDP22038 with Med13 domain of Kingdom Metazoa
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