<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 MDP15601

Description Mediator of RNA polymerase II transcription subunit 13
SequenceFFFVSAVILAPHGLCGVLTGVTYSENDHNPTSAKMFQDWSDYYPIKEDSLNKMPNMVEVIVGGTRMRYPTCYVLVCDNEDINGSNSVLQPLQTSILPGHNRSLTRSVSQFSPPASPIDPSMGLDHHGIKIAPLVGAVPGQTESSQTISDSKADSISFHIAEKVRQDACIHVSQNKRLSEVLSSEDQSHQPNVGVWNYTDPASKVTCNCVRHRKKAQGKNAPGGKHGKGDKNDKMDRQLSRLSRNPVPYHRRGHQLDDLLQFDVERVMTQPNPAFSSTGATTIVSSSNTTPQGRSSTPMHDNVVPMDTPNSAPSPLDEPQPPASSTLDPTMPTLSPHPPSKFLPDGSGGRPLNSVAGVGGAVLPTDTNHLAAPPGAVNIVGNSTVVLGSNNLNNNSTAGNVGSNTNISVTCAGSLISSTVNSAMNGVTVLVDSNCKLAGEDTSTSATAKMNSALSCMPVTPDSQQFSWSSVTSKTESVSHWVHSHQQRPSSEKQHERHFDTNLKRPSLPTKGSDSDTEQGMESLYNFDSLNMWIDLPLKKGRYDLSDSLSGDLIAPSSSFATHSRATPMIKSPEDIYEFSDEASKDPKTVTIRSRPSRDDRSSPLGKMDDDSRPSSRQGVADVTIKEEATNGETELGHLTSPLTPGGSLTRERDIRVVGADQDLAHIFQSDSEEDDDGGAPDSGIGTKSTDDLKPTRILNGTLGIIRTFFFYSSKYSVVVFFIYMCIQLDSRQSLNIVAFHNSVENSLPPIVETITNIKCDVFVPPVVAETIGASKYSAVELPSGRSSPLPTVPEYKSSCCPIPPVDLQNSQKMHYINVPSIENISSIRTVGSGIDASPAIYSNSQQRTPLSYELTSPASNSSSYLNKTNNSIDNHGTNGQLPEAHSLLLNVLLCDSILNLFKDHNFDSCTICVCNADINGSDVSVYLPDTSKGSSSGFKCSCAFSAAVNRRFGYNSGLFYEDEIEITGFRHDHYDHRKTPLMQSNDPSKSNGDPLKLDDITPQVMNQLLGQYASPFISCIGSHHINLLQMSTDLSHQLSTVDTLQIRDANEVVCQALEIARQAMDHCFGFARYDDPILKGNFLHKWPYLRGPGCVPSSTQETIQCLKSLHPILQTAIQNKRVTRLWENTYTLQGPISWKDFHDLAGRGTEENHEPQPIPHFLVGHDRDWLTVSPYSIRFWDKQFLEPYGRMRDVLYVVVAPDNDFILQHVVSFFKELSTVYEMCRLGRHCAINKPLRDGVLRVGKSAATKLMDEPVEDWFNFLGDSSIASKLKLYAQVCKHNLGPILCQTNWDKSMFEQGSSSSHKAQFKMPEPASNTTRPVTPDNQQSSGHPTGAAQGGQLSEEVKDGMPTDGSAQQKENQHDNVEGAGEDTNTEAPGIVVYLVDPFSYGQDGESVSRLAMIGLLRCYQQMALPEHLANNLSLQLVPLRTILEHKDSANKLQTLKSIAFSVFTSCKWNIGYSIMGRSLTGFGPAAAAEQFLKRKGVRVLSPSVLQESIYIYKNTFFFLWIGFRSVKHSMSYVKFKFVFMFHCYNSTVNVVYFVDIMILFYVPFRNRRKKASARRPGLQKLWDFILSVVSLTCYPTRLVIGRFGRMGHGELKGWSGLLSKKNLHSASRRLKDMCGQCSVMGPSEVPCVLSVCLTSIETHPSFQVVADTLKPEEKQSSSIPLQTPRDASVTHILVFPTSATAQVNANPLQQDPQNDLTAHFELDDVFVDIHQMGEDMGFLDIFGETFDNPPTSPPGSPISNANRQNLRMNGPSTSMIENQSDPQDDCNLLQQPLAMGYYISTAPPGPLPKWFWSACPENEFVSPHVFKSALHIHESSRHDDILHKTDNRNKPHALDSHMTCDVLRYVLENYNSLSWLTFDPVLNDRRSCLPVHFVVLMQLYHALQTFV
Length1897
PositionMiddle
OrganismBiomphalaria glabrata (Bloodfluke planorb) (Freshwater snail)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Mollusca> Gastropoda> Heterobranchia> Euthyneura> Panpulmonata> Hygrophila> Lymnaeoidea> Planorbidae> Biomphalaria.
Aromaticity0.07
Grand average of hydropathy-0.391
Instability index54.02
Isoelectric point6.06
Molecular weight209119.86
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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:RU364134

GO - Cellular Component
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP15601
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     461.48|     128|     708|     980|    1110|       1
---------------------------------------------------------------------------
  132-  299 (163.41/94.93)	PLVGAvpgqTESSQTISDS.KADSISFHIAEK.V..RQDACIHVS..QNKRLSEVLSSEDQSHQ.PNVGVWNYTDpASKVTCncvrhrkkaqgknapggkhgkgdkndkmdrQLSRLSRNPVPyHRRGH.QLDD.LLQFDvervMTQPNPAFSSTGatTIVSSSNTTPQGRSStpMH
  314-  385 (84.69/44.55)	PLDEP....QPPASSTLDP.TMPTLSPHPPSKFLpdGSGGRPLNSVAG...VGGAVLPTDTNHLAAPPGAVNIVG.NSTVV................................................................................................
  980- 1110 (213.38/138.53)	PLMQS....NDPSKSNGDPlKLDDITPQVMNQLL..GQYASPFISCIGSHHINLLQMSTDLSHQLSTVDTLQIRD.ANEVVC..............................QALEIARQAMD.HCFGFaRYDDpILKGN....FLHKWPYLRGPG..CVPSSTQETIQCLKS..LH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.81|      22|      25|     443|     464|       2
---------------------------------------------------------------------------
  443-  464 (37.87/21.08)	TSATAKMNSALSCMPVTPDSQQ
  471-  492 (35.94/19.61)	TSKTESVSHWVHSHQQRPSSEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.38|      25|      31|     536|     564|       3
---------------------------------------------------------------------------
  536-  564 (35.92/31.35)	PLKKGR...YDLSDSLSGDliaPsSSFATHSR
  567-  594 (40.46/22.73)	PMIKSPediYEFSDEASKD...P.KTVTIRSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.54|      36|      37|    1299|    1334|       4
---------------------------------------------------------------------------
 1299- 1334 (64.99/31.41)	QGSSSSHKAQFKMPEPASNTTRPVTPDNQQSSGHPT
 1338- 1373 (62.55/29.98)	QGGQLSEEVKDGMPTDGSAQQKENQHDNVEGAGEDT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     221.84|      68|     364|    1204|    1279|       7
---------------------------------------------------------------------------
 1204- 1279 (100.94/91.27)	DFILQhVVSfFKELSTVYEMCRLGRHCAINKPLRDGVL..RVGKSAATKLMDepVEDWFNFLGDSSIASKLklyaQVC
 1573- 1642 (120.91/79.92)	DFILS.VVS.LTCYPTRLVIGRFGRMGHGELKGWSGLLskKNLHSASRRLKD..MCGQCSVMGPSEVPCVL....SVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     161.65|      50|     708|     732|     783|       8
---------------------------------------------------------------------------
  732-  783 (80.12/57.52)	QSLNIVAFhnSVENSLP.PIVETITNIKCDVFVPPVVAETIGASKYSAVELPS
 1443- 1493 (81.53/51.81)	QTLKSIAF..SVFTSCKwNIGYSIMGRSLTGFGPAAAAEQFLKRKGVRVLSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.90|      44|     835|      44|      90|       9
---------------------------------------------------------------------------
   44-   90 (76.18/57.07)	PIKEDS..LNKMPNMVEviVGGTRMR.........................YPTCYVLVCdNEDINGSN.SVLQP
  857-  928 (61.71/36.45)	PASNSSsyLNKTNNSID..NHGTNGQlpeahslllnvllcdsilnlfkdhnFDSCTICVC.NADINGSDvSVYLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     141.99|      43|    1139|     631|     674|      11
---------------------------------------------------------------------------
  632-  652 (24.70/ 8.65)	.......................ETELGH...LTSPLTPGGSLT..RER
  653-  674 (24.82/ 7.19)	DIRVVGADQDLAHIFQSDSEED...........................
 1718- 1754 (53.91/24.47)	DIHQMGEDMGFLDIF.......gETFDNP...PTSP..PGSPISnaNRQ
 1755- 1786 (38.55/15.47)	NLRMNGPSTSMIEN.QSDPQDD.......cnlLQQPLAMG.........
---------------------------------------------------------------------------




































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 MDP15601 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CNCVRHRKKAQGKNAPGGKHGKGDKNDKMDRQLSRLSRNPVPYHRRGHQLDDLLQFDVERVMTQPNPAFSSTGATTIVSSSNTTPQGRSSTPMHDNVVPMDTPNSAPSPLDEPQPPASSTLDPTMPTLSPHPPSKFLPDGSGGRPLNSVAGVGGAVLPTDTNHLAAPPGAVNIVGNSTVVLGSNNLNNNSTAGNVGSN
2) DIFGETFDNPPTSPPGSPISNANRQNLRMNGPSTSMIENQSDPQDDCN
3) IAPSSSFATHSRATPMIKSPEDIYEFSDEASKDPKTVTIRSRPSRDDRSSPLGKMDDDSRPSSRQGVADVTIKEEATNGETELGHLTSPLTPGGSLTRERDI
4) QGSSSSHKAQFKMPEPASNTTRPVTPDNQQSSGHPTGAAQGGQLSEEVKDGMPTDGSAQQKENQHDNVEGAGEDT
5) SVSHWVHSHQQRPSSEKQHERHFDTNLKRPSLPTKGSDSDTEQGME
206
1730
553
1299
476
403
1777
654
1373
521










Molecular Recognition Features






MoRF SequenceStartStop




1) EDIYEF
573
578