<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 MDP20693

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceREPAISLVTLTPPTSPEETQTVDPHSAKKWVNIPPSSDVFSLDRTSHHGGKIPRRLSTQVVERVWQECNINRAQNKRKFSAATNGTCEEQLTEKVGAWDFVEPSQRSYCNCSRYKSVKQRAGSTPGQAQSAGQPSQPPTKHKAGGEKPEKGDKQQKRPQTPFHHRSLTSDEASIENETTAGQRLTMRSQDGGRFPSIRSVDVSAIQKAPQLHSGGVSTGPSEQANSPQPPPLSPHPCERGEESGEGMKNPSTPNSQHFYQPPPEPCLVGVKGGGEELSRSEGLNQHFHSHHPHHGVSVYSEPPEPIVYVGSAVNLEENGSHAPWRLFNLPRRKEAEMPTPLLPGDKLRDDASASQDNLLSVTEVMSTSKWQLKVSEERVQMYRARRNQYLSAAITDGDHEPEVDPYAFEEGDVKFTFSNKKDKAGGEREPGKKHKGEDGGTNPSDATRICCILSVGNLIFSFLHVCTDAQRAAAHNRMASTSLIHETDLVVSINDLDNLFNSDEDDLAPGSRRPVNGTDEKFGNKEPKPSTLDPVSCISSADLHQMFPTPPSLEQHIMGYSPMNMCNKEYGSMETNTGMNTLDGTSSLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKTLPSQSLPPIKIPEDCIYRPSWTMGREMTFLNKDNNIPSVGSTMDQDYSQTYTPQTHTPFMSNSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSDPIGEAQEPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSREAEKRFEELRLYSLERTGFGRGDRVPDELILLLQDQCTNPFSPISILEHDLVTRGPSGAPVPPCVRVEERDYHSDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHHWGKQNAVDVSALCSQDVLRALMSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYLVVCPDNESLLSGAKSFFRDLTAVYESCRLGQHRPISKGYPDGIVLVGGSGAKNLVDQPVSDWFLKAASGNSDAFTKLKLYAQVCRHNLAPYLASQPLDSSLLTQPSPPPSSSQSSTTQLSSSTSCAVGQQGSVNAAGASVPNNNSSSSSNTGTGNGSASSNSLVTSSGQSGSGMPPAKPNSFPPFGSMGSQGQGGGPQSGQLGQQAGTQNTGTSGDTSSSQAQGPTEPPESTLEREKVGVPTDGESHAITYPPAIVVYIVDPFSYEESDGVPGPVPAHSSVWTLGLLRCYLEMLQFLPAHVRNSISVQIVPCQYLLQPVRGEDRHIYAQHLKSLAFSVFAQCRRPLPTSTNVKSLTGFGPGLAIDTALKSPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIINVDVPNRARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRVVIGRLGRIGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISASDTPSILSVCLVAMEPQGSFIIMPDFSSPLHYSLKKALVFCVEGVDGEPDQWDYFGKTSGGLSVHHTTIVLSDAGLRTSPSSKALQLLSFYSYVSAYMRGNTTRFKCVVSIVKALL
Length1720
PositionMiddle
OrganismScophthalmus maximus (Turbot) (Psetta maxima)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Carangaria> Pleuronectiformes> Pleuronectoidei> Scophthalmidae> Scophthalmus.
Aromaticity0.07
Grand average of hydropathy-0.468
Instability index51.25
Isoelectric point6.19
Molecular weight187619.84
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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

>MDP20693
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.95|      15|      28|     234|     259|       1
---------------------------------------------------------------------------
  236-  254 (24.90/15.84)	PCERGEESGEGmknpSTPN
 1265- 1279 (28.05/ 9.88)	PFGSMGSQGQG....GGPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     141.19|      25|      29|     668|     692|       2
---------------------------------------------------------------------------
  638-  662 (37.44/19.57)	QSLPPIKI...PEDCI....YRPSW...TMGR.EMT
  668-  692 (44.22/24.75)	NNIPSVGS...TMDQD....YSQTY...TPQT.HTP
  696-  727 (25.06/10.10)	NSAPPSNSgagILPSP....ATPRFsapTPRTpRTP
  731-  759 (34.47/17.29)	RGPSSVQG...SLKYEnsdlYSPAS...TPST.CRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.67|      32|      39|    1186|    1222|       3
---------------------------------------------------------------------------
 1186- 1222 (51.26/39.55)	PSPPPSSSQSSTTQLSSStscavGQQGS..VNAAGASVP
 1231- 1264 (53.41/29.78)	NTGTGNGSASSNSLVTSS.....GQSGSgmPPAKPNSFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.59|      21|      39|    1073|    1097|       4
---------------------------------------------------------------------------
 1073- 1097 (34.79/30.48)	GSQRDI..GYlvvcPDNESLL..SGAKSF
 1111- 1135 (31.80/17.50)	GQHRPIskGY....PDGIVLVggSGAKNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.04|      18|      28|    1534|    1551|       5
---------------------------------------------------------------------------
 1534- 1551 (35.56/20.32)	GSVRRLGLQKLWDWCLGL
 1564- 1581 (33.48/18.73)	GRLGRIGHGELKDWSILL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     114.29|      27|      28|     143|     170|       6
---------------------------------------------------------------------------
  121-  141 (31.43/10.18)	AGS..TPGQAQSAGQPSQPPTKH.....
  143-  169 (47.80/21.78)	AGGE.KPEKGDKQQKRPQTPFHHRSLTS
  172-  199 (35.06/14.38)	ASIEnETTAGQRLTMRSQDGGRFPSIRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.54|      11|      39|     259|     269|       7
---------------------------------------------------------------------------
  259-  269 (25.74/12.10)	YQPPPEPCL.VG
  299-  310 (18.80/ 6.64)	YSEPPEPIVyVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.12|      17|      28|     929|     948|       8
---------------------------------------------------------------------------
  929-  948 (28.24/27.96)	RVEERDYHSDCymaLEH.GRQ
  957-  974 (26.88/16.36)	KVDEALVKSTC...LHHwGKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.15|      28|      28|     837|     864|       9
---------------------------------------------------------------------------
  810-  823 (20.45/ 7.48)	....GADVGVYLSDP..........IG.......E
  837-  864 (51.05/29.71)	NRRYGNGSGLFLEDELDI.......IGRGSDVSRE
  866-  891 (27.66/12.72)	EKRF.........EELRLyslertgFGRGDRVPDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.73|      12|      28|    1317|    1328|      10
---------------------------------------------------------------------------
 1317- 1328 (22.15/11.13)	EKVGVPTDGESH
 1348- 1359 (23.58/12.40)	ESDGVPGPVPAH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.61|      14|      28|     397|     411|      11
---------------------------------------------------------------------------
  397-  411 (23.24/17.63)	GDHEPEvDPYAFEEG
  426-  439 (26.37/15.16)	GEREPG.KKHKGEDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      71.80|      19|      19|     514|     532|      12
---------------------------------------------------------------------------
  514-  530 (25.41/11.05)	..........PVNG.TDEKFGNKEPKPS
  531-  551 (23.63/ 9.74)	TL.......dPVSCiSSADLHQMFPTPP
  552-  577 (22.75/ 9.09)	SLeqhimgysPMNM.CNKEYGSMETN.T
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.46|      18|      21|    1010|    1027|      13
---------------------------------------------------------------------------
 1010- 1027 (35.65/20.26)	SWGVQ...GPLTWQQFHKMAG
 1030- 1048 (23.94/10.94)	SYGTDespEPLPIPTF..LVG
 1052- 1067 (22.88/10.09)	DFVVL...SPFGLPYWEKL..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.61|      20|     537|     899|     921|      16
---------------------------------------------------------------------------
  899-  919 (34.11/18.20)	QCTNPFsPISILEHDLVTRGP
 1422- 1441 (37.50/16.45)	QCRRPL.PTSTNVKSLTGFGP
---------------------------------------------------------------------------




































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 MDP20693 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSHAPWRLFNLPRRKEAEMPTPLLPGDKLRDDASASQDNLLS
2) QGSVNAAGASVPNNNSSSSSNTGTGNGSASSNSLVTSSGQSGSGMPPAKPNSFPPFGSMGSQGQGGGPQSGQLGQQAGTQNTGTSGDTSSSQAQGPTEPPESTLEREKVGVPTDGES
3) QPLDSSLLTQPSPPPSSSQSSTTQLSSSTSCAVG
4) REPAISLVTLTPPTSPEETQTVDPHSAKKWVNIPPSSDVFSLDRTSHHGGKIPRRLST
5) SRYKSVKQRAGSTPGQAQSAGQPSQPPTKHKAGGEKPEKGDKQQKRPQTPFHHRSLTSDEASIENETTAGQRLTMRSQDGGRFPSIRSVDVSAIQKAPQLHSGGVSTGPSEQANSPQPPPLSPHPCERGEESGEGMKNPSTPNSQHFYQPPPEPCLVGVKGGGEELSRSEGLNQHFHSHHPHHGVSVYSEPP
6) TFLNKDNNIPSVGSTMDQDYSQTYTPQTHTPFMSNSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENS
319
1211
1176
1
112
662
360
1327
1209
58
303
745










Molecular Recognition Features






MoRF SequenceStartStop




NANANA