<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 MDP16910

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMRKAGVAHNKSSKDMESHVFMKAKTREEYLSLVARLIIHFRDIHNKKSQASVSDPMNALQNLTGGPPAGAPGMGMASRAQGAPMSGMSGLGPMGQQMSLPGQQQPPGTSGMAPHGMPGVSTATQQTQLQLQQIAQQQQQQHFSILAFPAFQMQQQQQQQQLQRIAQMQQLQAAQVMQAQQQQQQQQQQQQQIPQQQIQQQPPQQVMQQQMQQMQQQQQQQQQQQQQQQVAQAQQPQLPPQSQPQPQPMVSQPQAISGQIPGQVMPVTLTPQQLKAMQVRAQLVQQQQAAAAVQAAQAQAAQMGASGQMITAPMARGGMQIRPRFPPTTAVSATPPSSIPLGGQQMPQVSQNNITMMSSPSPVQQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSSQSEEQQYLEKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLDILTDPSKRCPLKTLQKCEIALEKLKNDMAVPTPPPPPVPPTKQQYLCQPLLDAVLANIRSPVFNHSLYRTFMPAMTAIHGPPITAPIASPRKRKYEEDERQTIPNVLQGEVARLNPKFLVNLDPSHCSNNGTVHLICKLDDKNLPNVPPLQLSVPADYPDQSPLWIKNPRQYAANPFLQSVYRYMTSKLLQLPDKHSVTALLNTWAQSIRQACLSAA
Length713
PositionTail
OrganismColumba livia (Rock dove)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Columbiformes> Columbidae> Columba.
Aromaticity0.03
Grand average of hydropathy-0.701
Instability index83.46
Isoelectric point9.87
Molecular weight78199.43
Publications
PubMed=23371554

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

>MDP16910
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     134.43|      27|      28|     174|     200|       1
---------------------------------------------------------------------------
  161-  188 (44.63/ 8.12)	LQRIAQmQQLQAA...QVMQAQQQQ...QQQQQQ
  189-  218 (48.78/ 9.63)	QQQIPQ.QQIQQQppqQVMQQQMQQ...MQQQQQ
  219-  245 (41.02/ 6.81)	QQ...Q.QQQQQQ...QVAQAQQPQlppQSQPQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.45|      22|      27|     363|     385|       2
---------------------------------------------------------------------------
  329-  350 (33.43/ 7.77)	AVSATPPSSIPLGGQQMPQ....VSQ
  367-  392 (43.03/13.89)	TPQSMPPPPQPQPSPQPGQptsqPNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.29|      24|      28|      81|     104|       3
---------------------------------------------------------------------------
   81-  103 (39.64/10.48)	......GAPMSGMSGL.GPMGQQMSLPGQQ
  104-  132 (33.71/ 7.65)	QppgtsGMAPHGMPGV.STATQQTQLQLQQ
  396-  420 (32.94/ 7.28)	S.....GPAPSPSSFLpSPSPQPSQSPAAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.53|      14|      23|     607|     620|       4
---------------------------------------------------------------------------
  607-  620 (24.62/15.11)	VARLNPKFLVNLDP
  632-  645 (26.92/17.23)	ICKLDDKNLPNVPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.72|      34|      36|     452|     487|       5
---------------------------------------------------------------------------
  452-  487 (48.55/41.02)	SEEQQYLEKLKQLSKYIePLRRMiNKID.KNEDRKKD
  489-  523 (53.18/35.12)	SKMKSLLDILTDPSKRC.PLKTL.QKCEiALEKLKND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.09|      24|     128|     133|     160|       7
---------------------------------------------------------------------------
  133-  156 (42.54/13.88)	IAQQQQQQHFSILAFP....AFQMQQQQ
  255-  282 (34.11/ 8.62)	ISGQIPGQVMPVTLTPqqlkAMQVRAQL
  290-  306 (25.44/ 9.24)	AAVQAAQAQ...........AAQMGASG
---------------------------------------------------------------------------




































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 MDP16910 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IHNKKSQASVSDPMNALQNLTGGPPAGAPGMGMASRAQGAPMSGMSGLGPMGQQMSLPGQQQPPGTSGMAPHGMPGVSTATQQTQL
2) QQQQAAAAVQAAQAQAAQMGASGQMITAPMARGGMQIRPRFPPTTAVSATPPSSIPLGGQQMPQVSQNNITMMSSPSPVQQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSSQSEEQQYLEKLKQ
3) QQVAQAQQPQLPPQSQPQPQPMVSQPQAISGQIPGQVMPVTLTPQ
43
284
227
128
463
271










Molecular Recognition Features






MoRF SequenceStartStop




NANANA