<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 MDP22006

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDLPVPQSVAGTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSQLGSHDGGMITVHSPKRSGKIPPKLHNHMVHRVWKECILNRTQPKRSQMSTPTLEEEPANSPATWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDPPGQKLGLAGIDSSLEVASSRKYDKQVAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETENLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPLNPESSDKWWHSYHLPSVDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPEGKNAMSLFSSTKTDVRQDSAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPIADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISCNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLAEELVSEWFNQPWGSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLASNPGSAAPSAGSAFNPTSNGSSVNPAASSSASGSSVPPASTSASAPIINQISTTSSSGFSGSVGGQNPSAGASSAERTQGSIGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2075
PositionMiddle
OrganismBalaenoptera acutorostrata scammoni (North Pacific minke whale) (Balaenoptera davidsoni)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Artiodactyla> Whippomorpha> Cetacea> Mysticeti> Balaenopteridae> Balaenoptera.
Aromaticity0.07
Grand average of hydropathy-0.397
Instability index59.21
Isoelectric point5.67
Molecular weight227353.64
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. 


ECO:0000256	RuleBase:RU364134

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

>MDP22006
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.09|      24|      28|    1486|    1510|       1
---------------------------------------------------------------------------
 1468- 1486 (25.49/ 6.51)	SSSGFSGSVG.GQNPSAGAS......
 1487- 1510 (46.51/20.94)	SAERTQGSIGCGGDTEPGQSSSQ..P
 1518- 1539 (30.09/13.81)	VTERER..IGIP..TEPDSADSQayP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.38|      28|      28|     898|     925|       2
---------------------------------------------------------------------------
  277-  320 (34.49/12.64)	TWDFVDPTQRVScscsrhkllkrcavgpsR.PPTISQPGFSAGPS
  879-  906 (39.98/15.96)	TPQMNTPVTLNS.................AAPASNSGAGVLPSPA
  907-  934 (48.91/21.33)	TPRFSVPTPRTP.................RTPRTPRGGGTASGQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.93|      26|      28|    1933|    1960|       3
---------------------------------------------------------------------------
 1933- 1960 (37.05/32.19)	GsHFQhSRSQGERL...LSREAPEELKQQPL
 1963- 1991 (44.88/28.02)	G.YFV.STAKAENLpqwFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|     991|    1015|       4
---------------------------------------------------------------------------
  991- 1015 (51.64/33.43)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1018- 1046 (36.91/21.71)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.08|      18|      28|    1731|    1757|       5
---------------------------------------------------------------------------
 1731- 1749 (30.33/33.76)	RSkVSAR..KIGLQKLWEWCI
 1760- 1779 (27.75/ 9.31)	RV.VIGRlgRLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.49|      21|      28|    2021|    2041|       6
---------------------------------------------------------------------------
 2021- 2041 (37.12/30.40)	PLDSKTTSDV.LRF.VLEQ.YNAL
 2048- 2071 (26.37/18.85)	PATQDRTSCLpVHFvVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.29|      20|      28|     398|     417|       7
---------------------------------------------------------------------------
  398-  417 (38.21/17.53)	PSRNTSKQMNLNPMDSPHSP
  427-  446 (38.08/17.45)	PQPRGQETENLDPPSVPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.26|      19|      24|    1402|    1425|       8
---------------------------------------------------------------------------
 1406- 1425 (30.66/19.66)	PGNAGPlASNPGSAAPSAGS
 1429- 1447 (32.60/ 9.26)	PTSNGS.SVNPAASSSASGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.14|      23|      26|    1605|    1630|       9
---------------------------------------------------------------------------
 1605- 1630 (38.99/30.81)	QvfyIQYLKSM..AFSVYCQCR...RPLPTQ
 1632- 1659 (30.15/15.21)	H...IKSLTGFgpAASIEMTLKnpeRPSPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.37|      13|      30|     228|     240|      10
---------------------------------------------------------------------------
  228-  240 (25.33/17.09)	PKRSGKIPPKLHN
  257-  269 (24.03/15.70)	PKRSQMSTPTLEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.79|      19|      23|     813|     835|      11
---------------------------------------------------------------------------
  814-  833 (32.38/20.68)	FAPLKMLPSQC.LLPLKiPDA
  836-  855 (33.41/ 8.28)	FRPSWAIPPKIeQLPMP.PAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.95|      23|      24|    1240|    1262|      12
---------------------------------------------------------------------------
 1240- 1262 (41.19/20.70)	SPEPLPIPTLLVGY....DKDFLTISP
 1263- 1289 (37.75/18.37)	FSLPFWERLLLDPYgghrDVAYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.64|      13|      30|     129|     141|      13
---------------------------------------------------------------------------
  129-  141 (23.59/15.70)	DDFPVAVEVI.VGG
  156-  169 (20.05/11.94)	NDLPVPQSVAgTGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.09|      41|     541|     184|     227|      14
---------------------------------------------------------------------------
  184-  227 (70.56/46.26)	PSNCGMPLTPPTSPeqaVIGESGGTQS.AVSQLGSHDGGMITVHS
  730-  771 (70.53/39.31)	PTPPSLEQHPAFSP...VMNYKDGISSeTVTALGMMESPMVSMVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.07|      18|      29|    1884|    1906|      15
---------------------------------------------------------------------------
 1884- 1906 (24.82/24.80)	SPNNDdmfvDLPFPDDmDNDIGI
 1915- 1932 (34.25/16.76)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     219.77|      68|    1264|      29|     101|      16
---------------------------------------------------------------------------
   29-  101 (105.57/96.11)	LSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVSPYgLNGTLtGQayKMSDPATR.KL
 1295- 1365 (114.20/81.14)	LEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklAEELVSEW.FNQPW.GS..EESDNHSRlKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.43|      14|      22|    1557|    1577|      17
---------------------------------------------------------------------------
 1562- 1577 (24.27/26.71)	NFWLLSLMRC.YteMLD
 1585- 1599 (23.16/ 6.65)	NSFILQIVPCqY..MLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.33|      13|      22|    1094|    1106|      19
---------------------------------------------------------------------------
 1094- 1106 (24.62/14.42)	QNQHTQPFASLSF
 1113- 1125 (26.71/16.39)	NNRQTLPCVSWSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.94|      41|      68|     606|     648|      21
---------------------------------------------------------------------------
  606-  648 (64.97/44.34)	DSLKKNKSEDGFGTkdVTTPGHSTPVPE.GKNAMSLFSSTKTDV
  676-  717 (64.97/38.29)	DNIFDNSDDDELGA..VSPALRSSKMPTvGTEDRPLGKDGRAAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.89|      21|      26|     325|     345|      22
---------------------------------------------------------------------------
  325-  345 (36.91/19.97)	LPP....PASSKHKTTERQEKGDKL
  350-  374 (32.98/16.96)	LIPfhhrPSVAEELCMEQDPPGQKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.22|      15|      22|    1841|    1855|      24
---------------------------------------------------------------------------
 1841- 1855 (25.53/13.15)	TALNMQSSQLNTPQD
 1866- 1880 (25.68/13.27)	TSSTIQVAPANYPNE
---------------------------------------------------------------------------




































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 MDP22006 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAV
2) CAVGPSRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDPPGQKLGLAGIDSSL
3) GILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
4) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPEGKNAMSLFSSTKTDVRQDSAAGRAGSSSLTQVTD
5) KYQTPPAAAQGQATPGNAGPLASNPGSAAPSAGSAFNPTSNGSSVNPAASSSASGSSVPPASTSASAPIINQISTTSSSGFSGSVGGQNPSAGASSAERTQGSIGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSA
6) RVWKECILNRTQPKRSQMSTPTLEEEPANSPATWDFV
7) SSRKYDKQVAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETENLDPPSVPVNPALYG
8) SVAGTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSQLGSHDGGMITVHSPKRSGKIPPKLH
9) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
669
300
1905
602
1392
245
387
163
868
717
383
1953
667
1533
281
450
239
965










Molecular Recognition Features






MoRF SequenceStartStop




1) RFKIW
545
549