<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 MDP00415

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequencePLLSSPLLSSPLLSSPLLSSLLLSSLLPLLSFPPLSSLPFRSPAHPPRPLLPSPPSFPPSGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYLVVCPDNEALLQGAKSFFRDLTAVYESCRLGQHQPISKGHPDGIVRVGGSAAKKLAEQPVSDWFIKAASSNSDAFAKLKLYAQVCRHDLAPYLAAQPLDSSLLTQPTPPPATNQSSSTQSSGSSSTTSACPQNSATPSLPNNNSSSVPSNNTGVANSANSTASSGIQPSSGLQSAKPSSFPPFGTMSMQNQGQGGGTQGGQLGQQAGAQNAGLTGVDSASQAQSPTEPLESTMEREKVGVPTDGESHAITYPPAIVVYIVDPFTYEEPEAGSSVWTLGLLRCYLEMLQFLPPHIRNSVSVQIIPCQYLLQPVRSEERHIYAQHLKSLAFSVFSQCRRPLPRSTNVKSLTGFGPGLAINTALKSPERPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISIDVPNRWDHIILTTSTTIIVVSSEVLCYLTFILSYSLNNSSLSSLSPSFPDWSILLSRRNLQSLCRRLKEMCRMCGISASDTPSILSACLVAMEPQCSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVASSNYTTDTNIDIAFNPIPDGSDAIGIFDLLDQENELVDPDIINILPSSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHDEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMNML
Length892
PositionMiddle
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.08
Grand average of hydropathy-0.130
Instability index63.21
Isoelectric point5.33
Molecular weight96579.10
Publications
PubMed=24755649

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

>MDP00415
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      69.56|      18|      22|       2|      19|       1
---------------------------------------------------------------------------
    2-   15 (21.70/ 7.69)	......LLSS......PLLSSPLLSS
   16-   37 (26.13/11.24)	PLLSslLLSS....llPLLSFPPLSS
   39-   57 (21.73/ 7.70)	PFRS......pahpprPLLPSP.PSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.83|      19|      22|     292|     310|       2
---------------------------------------------------------------------------
  261-  279 (24.43/11.66)	TGV.ANSANSTASSGIQPSS
  292-  310 (33.53/19.01)	FGT.MSMQNQGQGGGTQGGQ
  311-  330 (19.87/ 7.97)	LGQqAGAQNAGLTGVDSASQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.79|      18|      22|     143|     164|       3
---------------------------------------------------------------------------
  143-  164 (26.40/27.60)	QPISkghpDGIVRVGGSA....AK.KL
  167-  189 (23.39/12.49)	QPVS....DWFIKAASSNsdafAKlKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.86|      19|      22|     209|     230|       4
---------------------------------------------------------------------------
  209-  229 (31.55/19.15)	SSLLTQPTP........PPatNQSSSTQS
  232-  258 (29.31/ 8.66)	SSSTTSACPqnsatpslPN..NNSSSVPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.60|      18|      22|     377|     397|       5
---------------------------------------------------------------------------
  377-  397 (23.47/29.08)	PEAGSSVwTLGLLRC.YLemLQ
  401-  419 (30.13/19.64)	PHIRNSV.SVQIIPCqYL..LQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.73|      40|     168|     622|     682|       6
---------------------------------------------------------------------------
  622-  671 (52.58/62.28)	ASDTPSILSACLVAMEPqcsfviMPDSVSTGSVFgrsTTLNmQTSQLSTP
  691-  730 (69.15/31.23)	ASSNYTTDTNIDIAFNP......IPDGSDAIGIF...DLLD.QENELVDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.69|      21|      24|      65|      87|       7
---------------------------------------------------------------------------
   65-   87 (36.12/29.08)	SP..EPLPIPTFlvGYEYD..FVVLSP
   90-  114 (30.57/17.56)	LPywEKLLLDPF..GSHRDvgYLVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     159.41|      50|      61|     759|     812|       8
---------------------------------------------------------------------------
  759-  812 (82.97/54.66)	SKGQSTDRMESHDEAPNILQQPLALGYFVsTAKAGPLPdwfWSAC.PQAQNQ..C.PL
  823-  876 (76.44/39.10)	SSVQSDELLHSKHSHPLDSNQTSDVLRFV.LEQYNALS...WLTCdPATQDRrsClPI
---------------------------------------------------------------------------




































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 MDP00415 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) QPLDSSLLTQPTPPPATNQSSSTQSSGSSSTTSACPQNSATPSLPNNNSSSVPSNNTGVANSANSTASSGIQPSSGLQSAKPSSFPPFGTMSMQNQGQGGGTQGGQLGQQAGAQNAGLTGVDSASQAQSPTEPLESTMEREKVGVPTDGE
2) SPVHSPGGHYHQGGDGSKGQSTDRMESHDEAP
205
743
354
774










Molecular Recognition Features






MoRF SequenceStartStop




NANANA