<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 MDP22005

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDLPVPQSVAGTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSQLGSHDGGMITVHSPKRSGKIPPKLHNHMVHRVWKECILNRTQPKRSQMSTPTLEEEPANSPATWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDPPGQKLGLAGIDSSLEVASSRKYDKQVAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETENLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPLNPESSDKWWHSYHLPSVDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPEGKNAMSLFSSTKTDVRQDSAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISCNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLAEELVSEWFNQPWGSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLASNPGSAAPSAGSAFNPTSNGSSVNPAASSSASGSSVPPASTSASAPIINQISTTSSSGFSGSVGGQNPSAGASSAERTQGSIGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2076
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 index59.19
Isoelectric point5.67
Molecular weight227440.72
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

>MDP22005
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     136.48|      25|      28|    1487|    1511|       1
---------------------------------------------------------------------------
  305-  330 (30.68/10.75)	SRP......P.............TISQPGFSaGpsSSSSLPP.PAS
  886-  908 (25.73/ 7.54)	..P......V............TLNSAAPAS.N..SGAGVLPSPAT
 1420- 1456 (26.04/ 7.74)	AAP......SagsafnptsngsSVNPAASSS.A..SGSSVPPASTS
 1487- 1508 (30.45/10.60)	.........S............SAERTQGSI.G..CGGDTEPGQSS
 1509- 1535 (23.59/ 6.16)	SQPsqdgqeS............VTERER..I.G..IP..TEPDSAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.58|      21|      27|    1606|    1632|       2
---------------------------------------------------------------------------
 1593- 1616 (29.84/19.69)	VPCQYMLQTMKDEQvfyIQYLKSM
 1620- 1640 (38.74/25.77)	VYCQCRRPLPTQIH...IKSLTGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.08|      18|      27|    1732|    1758|       3
---------------------------------------------------------------------------
 1732- 1750 (30.33/37.68)	RSkVSAR..KIGLQKLWEWCI
 1761- 1780 (27.75/10.45)	RV.VIGRlgRLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.48|      25|      26|     398|     422|       4
---------------------------------------------------------------------------
  410-  438 (42.74/17.96)	PMDSPHSPISPLPptlsPQPRGQETENLD
  554-  580 (40.73/16.73)	PQMQPLHFLDPLP..lsQQPGDSLGEVND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.37|      13|      26|     228|     240|       5
---------------------------------------------------------------------------
  228-  240 (25.33/14.99)	PKRSGKIPPKLHN
  257-  269 (24.03/13.77)	PKRSQMSTPTLEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      29|     992|    1016|       6
---------------------------------------------------------------------------
  992- 1016 (51.64/32.78)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1019- 1047 (36.91/21.28)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.64|      13|      26|     129|     141|       7
---------------------------------------------------------------------------
  129-  141 (23.59/15.14)	DDFPVAVEVI.VGG
  156-  169 (20.05/11.53)	NDLPVPQSVAgTGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.56|      20|      20|     815|     834|       8
---------------------------------------------------------------------------
  815-  834 (35.24/15.03)	FAPLKMLPSQC.LLPLKIPDA
  837-  856 (32.70/13.39)	FRPSWAIPPKIeQLPMP.PAA
  954-  971 (31.62/12.68)	TRPLNSVEPAT.MQP..IPEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.14|      23|      26|    1906|    1928|       9
---------------------------------------------------------------------------
 1906- 1928 (43.17/27.24)	GILMTGNL.HSSPNSSPVPSPGSP
 1930- 1953 (33.97/19.27)	GIGVGSHFqHSRSQGERLLSREAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.74|      27|     466|     909|     936|      10
---------------------------------------------------------------------------
  909-  936 (47.48/26.92)	PRFSVPtPRTPRTPRTP.RGGGTASGQGS
 1392- 1419 (45.26/21.52)	PKYQTP.PAAAQGQATPgNAGPLASNPGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     278.46|     108|     466|     683|     811|      11
---------------------------------------------------------------------------
  343-  461 (70.10/25.97)	DKLQK.RPLIPFHHRPSVAEElcmeqDPPGQKLGLAGIDSSLEVAssrkyDKQVAVPsrnTskqmnlnpmdsphspisplpptlspqprgqetenldPPSVPVNPAL.....YGNGLELQQLSTL........................................................
  685-  811 (168.52/127.20)	DELGAvSPALRSSKMPTVGTE.....DRPLGKDGRAAVPYPPTVA.....DLQRMFP...T....................................PPSLEQHPAFspvmnYKDGISSETVTALGMMESPMVSMVSTQLTEFKmevEDGLgspkpeEIKDFSyvhkVPTFQ.....PFVG
 1235- 1279 (39.85/12.59)	...........................................................................................................................TYGSEESPEPLPIPTLLVGYD...KDFL......TISPFS....LPFWErllldPYGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     236.88|      74|    1265|      22|     101|      12
---------------------------------------------------------------------------
   22-  101 (112.41/86.47)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVSPYgLNGTLtGQayKMSDPATR.KL
 1290- 1366 (124.47/72.60)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklAEELVSEW.FNQPW.GS..EESDNHSRlKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.49|      21|      28|    2022|    2042|      13
---------------------------------------------------------------------------
 2022- 2042 (37.12/26.20)	PLDSKTTSDV.LRF.VLEQ.YNAL
 2049- 2072 (26.37/16.15)	PATQDRTSCLpVHFvVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.65|      24|      30|     585|     608|      14
---------------------------------------------------------------------------
  584-  607 (42.21/31.25)	F.....EDG.DIKYIFTANKK..CKQGTEKDS
  608-  639 (27.44/16.97)	LkknksEDGfGTKDVTTPGHStpVPEGKNAMS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.08|      16|     467|    1197|    1212|      15
---------------------------------------------------------------------------
 1197- 1212 (31.05/19.43)	PFLQDAIQKKRT..GRTW
 1665- 1682 (25.02/14.20)	PFILAPIKDKQTelGETF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.70|      17|      31|    1073|    1089|      16
---------------------------------------------------------------------------
 1073- 1089 (27.43/14.14)	FLPQMEGARKSQEPPIS
 1090- 1106 (24.15/11.44)	LLLLLQNQHTQPFASLS
 1107- 1123 (29.13/15.53)	FLDYISCNNRQTLPCVS
---------------------------------------------------------------------------




































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 MDP22005 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CAVGPSRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDPPGQKLGLAGIDSSL
2) GILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
3) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPEGKNAMSLFSSTKTDVRQDSAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVP
4) KYQTPPAAAQGQATPGNAGPLASNPGSAAPSAGSAFNPTSNGSSVNPAASSSASGSSVPPASTSASAPIINQISTTSSSGFSGSVGGQNPSAGASSAERTQGSIGCGGDTEPGQSSSQPSQDGQESVTERERIGIPTEPDSA
5) RVWKECILNRTQPKRSQMSTPTLEEEPANSPATWDFV
6) SSRKYDKQVAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETENLDPPSVPVNPALYG
7) SVAGTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSQLGSHDGGMITVHSPKRSGKIPPKLH
8) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
300
1906
602
1393
245
387
163
869
383
1954
718
1534
281
450
239
966










Molecular Recognition Features






MoRF SequenceStartStop




1) RFKIW
545
549