<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 MDP00399

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMMTISHLISMLLFTSEKEEYLFLVARLIIHLRDIRPNPTFLFYLLCSSGSRSDFSRQLFCQVELRNGLCFVLQIKRRKEEVLDPVSESGFRLKPVGKRVIRPRLDVLSFPDDYLFERFRFSSQLIIHLNNFLKPHIVHVTHREHALSSEQILCVALSFFCHGGFLYNHGDAEHISKATVCRAVRNVTLTLKRLLYTFVVFPSHRPTRLQEFHRIAGFPGVIGCIDGIHIPITAPSSPGNLHEEEDSAMEVPGPDSDWRSPAFRQKVVAQIEEAMRKAGTAHTKSSNDMENHVYVKAKSREEYLSLVARLIIHFRDIHKKAQGGGPDPMNALTNLPGVPGVPGGIGMGPRPPGAPMGGMGQMQMSQHAMAGVAGNPQSIGGPGQMQMQQIAQQQAQQQAQQQSIQFQQFQAQQQQTAMQQQQQTAMQQQQQQQQQTAMQQQTAIQQQQFQVQQQMKLQQLQQQHHQNQQLQQQHQNQQQQQSQNQQQQNQMHPSRHQQQQIQLQLQQQHAQSIQHMVQQQQQQQVQSQPQPTQLPPHSQQQQGMVPQSLAGQMAPTQHVQQHQMMSSPSPVQVQTPQSMPPPPQPQPSPQPPSSQPNSVSSSGPTPSPGGFQPSPSPQPSHSPATARTPQNYGVPSPGPLNTPGNPSSVISPVGASQLEDQQYMEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLNILTDPSTRCPLRTLQKCEIALEKLKNDMAVPTPPPPPVPCTKQQYLCQPLLDAVMANIRSPVFNHSLYRTFAPAMTAIHGPPITGPTIVARKRKHEEDDRQTIPNILQGEVARLNAKFLVNLDPSFCSNNGTVHLICKLDDKNLPSVPPLQLSIPADYPDQSPQWADDGQVYGANPFLKNVHRNMTSKLLQLPDKHSVTALLNTWAQSVRQACLSAA
Length918
PositionTail
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.05
Grand average of hydropathy-0.624
Instability index73.04
Isoelectric point9.31
Molecular weight102920.07
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. 
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

>MDP00399
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.86|      18|      18|     411|     428|       1
---------------------------------------------------------------------------
  411-  428 (38.76/10.66)	QQQQTAMQQQQQTAMQ..QQ
  431-  446 (32.64/ 7.92)	QQQQTAM..QQQTAIQ..QQ
  476-  495 (28.47/ 6.06)	QQQQQSQNQQQQNQMHpsRH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.31|      18|      20|     575|     594|       2
---------------------------------------------------------------------------
  521-  538 (33.11/ 9.30)	QQQV..QSQPQPTQLPPHSQ
  575-  594 (36.19/15.75)	PQSMppPPQPQPSPQPPSSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.50|      20|      20|     346|     365|       3
---------------------------------------------------------------------------
  346-  365 (44.74/23.03)	MGPRPPGAP..MGGMGQMQMSQ
  367-  388 (34.76/16.16)	AMAGVAGNPqsIGGPGQMQMQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.02|      17|      64|     392|     409|       4
---------------------------------------------------------------------------
  392-  409 (30.74/13.60)	QQAQQQaQQQSIQF..QQFQ
  502-  520 (26.28/ 7.58)	LQLQQQ.HAQSIQHmvQQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.28|      27|      28|     605|     631|       5
---------------------------------------------------------------------------
  605-  631 (53.90/20.78)	PSPGGFQPSPSPQPSHSP..ATARTPQNY
  634-  662 (45.38/16.30)	PSPGPLNTPGNPSSVISPvgASQLEDQQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.44|      23|      87|     451|     474|       7
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  451-  474 (40.63/18.45)	QQQMKLQQLQQQHHQNQQLQQqHQ
  540-  562 (43.81/16.76)	QQGMVPQSLAGQMAPTQHVQQ.HQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.61|      19|     280|      17|      35|       8
---------------------------------------------------------------------------
   17-   35 (36.33/31.51)	KEEYLFLVARLIIHLRDIR
  299-  317 (36.28/31.45)	REEYLSLVARLIIHFRDIH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.74|      20|     118|     205|     224|       9
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  205-  224 (38.77/23.47)	PTRLQEFHRIAGFPGVIGCI
  325-  344 (38.97/23.62)	PDPMNALTNLPGVPGVPGGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.53|      44|     125|     718|     761|      11
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  718-  761 (81.11/41.13)	CEIALEKLKN....DMAVPTPPPPPVPC...TKQQYLCQPLLDAVMANIRS
  838-  888 (69.43/34.09)	CKLDDKNLPSvpplQLSIPADYPDQSPQwadDGQVYGANPFLKNVHRNMTS
---------------------------------------------------------------------------




































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 MDP00399 with Med15 domain of Kingdom Metazoa
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