<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 MDP11965

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMSWISDRSTRLTVGGPGQMQMQQIAQQQQSIQFQQFQAQQQQTAMQQQQQTAMQQQQQQTAMQQQTAIQQQQFQVQQQLKLQQLQQQHHQNQQLQQQHQNQQQQQAQNQQQQNQMHPSRLQQQQQIVQLQLQQQHAQAQAQAQAQAQAQAQAQAQAQSIQHMVQQQQQVQAQSQPQAAQLPPHSQQQQGMVPQSLAGQMPSTQHVPISSLSQQQQQQQLKIQALQARAMQQQVQQAAQQAQQAAAQAQLAAAVPGQMMMPRLGMQIPPRLPRAAPNPAIPPNSAAMGGQQIPQVQQHQMMSSPSPVQVQTPQSMPPPPQPQPSPQPPSSQPNSVSSSGPTPSPGGFQPSPSPQPSHSPATARTPQNYSVPSPGPLNTPGNPSSVMSPSGANQQEDQQYMEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLNILTDPNTRCPLRTLQKCEIALEKLKNDMAVPTPPPPPVPCTKQQYLCQPLLDAVMANIRSPVFNHSLYRTFAPAMTAIHGPPIMGPIIAARKRKHEEDDRQTIPNILQGEVARLNAKFLVNLDPSFCSNNGTVHLICKLDDKNLPSVPPLQLSIPADYPDQSPQWADDGQVYGANPFLQNVHRNMTSKLLQLPDKHSVTALLNTWAQSVRQACLSAA
Length654
PositionTail
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.03
Grand average of hydropathy-0.841
Instability index80.62
Isoelectric point9.66
Molecular weight72592.19
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. 


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

>MDP11965
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     309.19|      36|      36|      22|      57|       1
---------------------------------------------------------------------------
   18-   53 (70.67/15.60)	QM...QM...QQIA.QQQQSI.QFQQFQAQQQQTAMQ....QQQQTAM
   54-   89 (57.82/10.95)	QQ...QQ...QQTAmQQQTAI.QQQQFQVQQQLK.LQ....QLQQQHH
   90-  115 (44.28/ 6.05)	QN...QQ..............lQ.QQHQNQQQQQAQN....QQQQNQM
  116-  154 (46.50/ 6.85)	HPsrlQQ..qQQIV.QLQLQQ.QHAQAQAQAQAQA.Q....AQAQAQA
  155-  190 (45.40/ 6.45)	QA...QS..iQHMV.QQQQ......QVQAQSQPQAAQlpphSQQQQGM
  191-  229 (44.53/ 6.14)	VP...QSlagQMPS.TQHVPI.SSLSQQQQQQQLKIQ....ALQARAM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.46|      26|      27|     319|     344|       2
---------------------------------------------------------------------------
  313-  340 (45.69/13.82)	SMPPppQPQPSPQPPSS.......QPNSVSSSGPT
  341-  375 (37.78/ 9.75)	PSPGgfQPSPSPQPSHSpatartpQNYSVPSPGPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.90|      27|      28|     429|     455|       3
---------------------------------------------------------------------------
  405-  428 (24.91/ 9.44)	LSKyiepLRRMINKI.DKNED......RK.KD
  429-  455 (46.87/24.08)	LSK....MKSLLNILTDPNTRCPLRTLQK.CE
  458-  485 (45.12/22.92)	LEK....LKNDMAVPTPPPPPVPCTKQQYlCQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.97|      20|      23|     248|     267|       4
---------------------------------------------------------------------------
  262-  282 (32.31/12.60)	L.GMQIP.....pRLPRAAPNPAIPPN
  286-  312 (25.66/ 8.29)	MgGQQIPqvqqhqMMSSPSPVQVQTPQ
---------------------------------------------------------------------------




































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 MDP11965 with Med15 domain of Kingdom Metazoa
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