<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 MDP01599

Description Mediator of RNA polymerase II transcription subunit 15 (Fragment)
SequenceDEAMRKAGVAHNKSSKDMESHVFMKAKTREEYLSLVARLIIHFRDIHNKKSQASVSDPMNALQNLTGGPTAGAPGMGMASRAQGAPMSGMTGLGPMAQQMSLPGQQQPPGTSGMAPHGMPGVSTATQQTQLQLQQIAQQQQQQQFQQQQSIFSVAQLQLQQIAQQQQQQQFQQQQQQQQQQLQAVQQQQQHMLKLQMQQQQNQQQMQQQQQQQQLQRIAQMQQLQAAQVMQAQQQQQQQQQQQQQIPQQQIQQQPPQQVMQQQMQQIQQQQQQQQQQQQQQVAQAQQSQLPPQSQPQPQPMVSQPQAISGQIPKVSYPTQVCMFTLVFVLLLKVRAQLVQQQQQAAAVQAAQAQAAQMGASGQVPILYSLLLLLIVSFPTFQVSQNNITMMSSPSPVQQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSGQSEEQQYLEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLDILTDPSKRCPLKTLQKCEIALEKLKNDMAVPTPPPPPVPPTKQQYLCQPLLDAVLANIRSPVFNHSLYRTFMPAMTAIHGQPITAPIASPRKRKYEEDERQTIPNVLQGEVARLNPKFLVNLDPSHCSNNGTVHLICKLDDKNLPNVPPLQLSVPADYPDQSPLWIKNPRQYAANPFLQSVYRYMTSKLLQLPDKHSVTALLNTWAQSIRQACLSAA
Length748
PositionTail
OrganismCorvus brachyrhynchos (American crow)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Passeriformes> Corvoidea> Corvidae> Corvus.
Aromaticity0.04
Grand average of hydropathy-0.723
Instability index84.39
Isoelectric point9.66
Molecular weight83233.82
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. 


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

>MDP01599
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     207.70|      34|      34|     172|     205|       1
---------------------------------------------------------------------------
  123-  157 (45.51/ 6.64)	STAT..QQTQLQ.lQQIAQQQQQQ...Q.FQQQ.QSifSVAQL
  158-  195 (59.49/11.49)	QLQQiaQQQQQQqfQQQQQQQQQQL..QAVQQQ.QQ..HMLKL
  196-  224 (52.68/ 9.12)	QMQQ..QQNQQQ.mQQQQQQQQ..L..QRIAQM.QQ......L
  225-  262 (50.01/ 8.20)	QAAQ.vMQAQQQ..QQQQQQQQQQIpqQQIQQQpPQ..QVMQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.03|      18|      27|     408|     425|       2
---------------------------------------------------------------------------
  391-  408 (30.33/ 6.50)	MSSPSPVQQAQTPQSMPP
  409-  426 (41.70/12.03)	PPQPQPSPQPGQPTSQPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.80|      20|      28|     433|     460|       3
---------------------------------------------------------------------------
  433-  453 (35.37/ 8.29)	PAPSPSSfLPSP.SPQPSQSPA
  464-  482 (29.13/ 7.96)	PSPGP...LNTPgNPNSVMSPA
  562-  580 (37.30/ 6.09)	PTPPPPP.VP.P.TKQQYLCQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.20|      18|      23|     270|     291|       4
---------------------------------------------------------------------------
  263-  280 (34.60/ 7.42)	QMQQIQQ.....QQQQQQQQQQQ
  281-  303 (27.60/ 8.51)	QVAQAQQsqlppQSQPQPQPMVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.82|      21|      23|      68|      90|       5
---------------------------------------------------------------------------
   58-   85 (28.18/14.43)	PMNALqnltgGPTagAPGMGMASRAQGA
   86-  109 (37.64/15.01)	PMSGM..tglGPM..AQQMSLPGQQQPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.77|      12|     173|     495|     507|       6
---------------------------------------------------------------------------
  495-  507 (16.31/13.71)	KLKQLSKYIePLR
  532-  543 (21.45/13.10)	ILTDPSKRC.PLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.37|      23|      43|     320|     344|       8
---------------------------------------------------------------------------
  320-  344 (34.49/33.44)	QV.CMFTLvfVLLLKVRAQLVQQQQQ
  363-  386 (33.88/24.10)	QVpILYSL..LLLLIVSFPTFQVSQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.62|      18|      23|     642|     659|       9
---------------------------------------------------------------------------
  642-  659 (32.82/19.26)	VARLNPKFLVNLDPSHCS
  667-  684 (32.81/19.25)	ICKLDDKNLPNVPPLQLS
---------------------------------------------------------------------------




































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 MDP01599 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IHNKKSQASVSDPMNALQNLTGGPTAGAPGMGMASRAQGAPMSGMTGLGPMAQQMSLPGQQQPPGTSGMAPHGMPGVSTATQQ
2) QNNITMMSSPSPVQQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSGQSEEQQYLEKLKQ
46
385
128
498










Molecular Recognition Features






MoRF SequenceStartStop




NANANA