<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 MDP00436

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMEVPGPESDWRSPAFRQKVVAQIEEAMRKAGTAHTKSSNDMENHVYVKAKSREEYLSLVARLIIHFRDIRKYPTYFSYLQYPMNALTNLTGVPGGIAMGPRPPGAPMGGMGTMGQMQMGQHAMAGVAGNPQAIGGPGQMQMQQIAQQQSIQFQQFQAQQQQTAMQQQQQTAMQQQQTAMQQQTAIQQQHCNSYSSNTIRTNSSNSSTKTSSSSRPKTSNNRTRYNRDANLSIFDDVRHLDLKIGHLRELCRAYLHAFPISFQMHPSRLQQQQQIVQLQLQQQHAQAQAQAQAQAQAQAQAQAQAQSIQHMVQQQQVQAQSQPQAAQLPPHSQQQQGMVPQSLAGQMTSTQHVPISSLSQQQQQLKIQALQARAIQQQQVQQAQQAAQQAQQAAAQAQLAAAVPGQMMMPRLGMQIPPRLPRAAPNPAIPPNSAAMGGQQMPQVQQHQMMSSPSPVQVQTPQSMPPPPQPQPSPQPPSSQPNSVSSSGPTPSPGGFQPSPSPQPSHSPATARTPQNYSVPSPGPLNTPGNPSSVMSPSGANQQEDQQYMEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLNILTDPNTRCPLRTLQKCEIALEKLKNDMAVPTPPPPPVPCTKQQYLCQPLLDAVMANIRSPVFNHSLYRTFAPAMTAIHGPPIMGPIIAARKRKHEEDDRQTIPNILQGEVARLNAKFLVNLDPSFCSNNGTVHLICKLDDKNLPSVPPLQLSIPADYPDQSPQWADDGQVYGANPFLQNVHRNMTSKLLQLPDKHSVTALLNTWAQSVRQACLSAA
Length803
PositionTail
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.04
Grand average of hydropathy-0.690
Instability index68.08
Isoelectric point9.70
Molecular weight88429.37
Publications
PubMed=24755649

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:RU364148
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

>MDP00436
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     109.46|      26|      26|     468|     493|       1
---------------------------------------------------------------------------
  137-  161 (34.91/ 6.55)	GQMQMQ.QIAQQQ..SIQFQQFQAQQQQ
  162-  187 (36.80/ 7.35)	TAMQQQQQTAMQQ..QQTAMQQQTAIQQ
  453-  480 (37.76/ 7.76)	SPVQVQTPQSMPPppQPQPSPQPPSSQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     206.00|      56|      61|     297|     353|       2
---------------------------------------------------------------------------
  258-  290 (47.86/10.44)	PISFQMHPSRLQQQQQIVQ.LQLQ.................QQHAQAQAQA..........................
  322-  385 (81.69/25.36)	PQAAQLPPHSQQQQGMVPQsLAGQMT....STQHVPisslsQQQQQLKIQAL.........QaRAIQQQQVQqAQQA
  386-  451 (76.45/21.14)	AQQAQQAAAQAQLAAAVP....GQMMmprlGMQIPP.....RLPRAAPNPAIppnsaamggQ.QMPQVQQHQ.MMSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.34|      27|      28|     490|     516|       3
---------------------------------------------------------------------------
  490-  516 (55.21/19.77)	PSPGGFQ..PSPSPQPSHSPATARTPQNY
  519-  547 (48.13/16.38)	PSPGPLNtpGNPSSVMSPSGANQQEDQQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.86|      18|      21|      82|     101|       4
---------------------------------------------------------------------------
   82-   99 (32.39/12.01)	PMNALTNLTGVPGGIAMG
  102-  119 (36.07/21.60)	PPGAPMGGMGTMGQMQMG
  121-  135 (21.40/ 6.99)	..HAMAGVAGNPQAIG.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.90|      27|      28|     578|     604|       5
---------------------------------------------------------------------------
  554-  577 (24.91/11.26)	LSKyiepLRRMINKI.DKNED......RK.KD
  578-  604 (46.87/28.41)	LSK....MKSLLNILTDPNTRCPLRTLQK.CE
  607-  634 (45.12/27.05)	LEK....LKNDMAVPTPPPPPVPCTKQQYlCQ
---------------------------------------------------------------------------




































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 MDP00436 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IEPLRRMINKIDKNEDRKKDLSKMKSLLNILTDP
2) IQFQQFQAQQQQTAMQQQQQTAMQQQQTAMQQQTAIQQQHCNSYSSNTIRTNSSNSSTKTSSSSRPKTSNNRTRYNRDANLSIFDDVR
3) QAQSQPQAAQLPPHSQQQQGMVPQSLAGQMTSTQHVPISSLS
4) QQQQVQQAQQAAQQAQQAAAQAQLAAAVPGQMMMPRLGMQIPPRLPRAAPNPAIPPNSAAMGGQQMPQVQQHQMMSSPSPVQVQTPQSMPPPPQPQPSPQPPSSQPNSVSSSGPTPSPGGFQPSPSPQPSHSPATARTPQNYSVPSPGPLNTPGNPSSVMSPSGANQQEDQQYMEKLKQLSK
5) TGVPGGIAMGPRPPGAPMGGMGTMGQMQMGQHAMAGVAGNPQAIGGPGQMQMQQIAQ
558
150
317
375
90
591
237
358
556
146










Molecular Recognition Features






MoRF SequenceStartStop




NANANA