<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 MDP15843

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAEKLRKRKFVCISWCFLCKEADEDVDYILIHCKLAKGGLHQISWFQFLPHESDVNSLVDKRVKLDKKDAATFLVLSSHLQLQKERFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEELAAALSQALRNCMERTLRGHSYVRYGDVFTKYRPFSQSEELFRKGQPVVEFIFAATEEAIFVHVIISAKHIRALSSGDIDRISENASNVSGEGLPVIVSPHGMRGRLTGCCPGDLVKQVYLSSGKFSASNGIVGLPCNVSQSGYQLKGQNCYVEVSFGCTAPGNNNIQESSNVQNNSSRPIKTEASAVANVVQSKIPDNCGRMLIYPPEAVLVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDYHSDAKVNSMDGSWLDANVIGSNRRYNSSSNSNCSSLSSTSTSSSDSDYKTSGTGDLEADADSLMCRQSGLSSLDRSQNDNLKTGFKRSRTGISESFSQGGAVVNPSTSDYASMEVNNSAITGGNDQLGLQWGWDDDDRDVGMDIQALLSEFGDFGDFFENDALPFGEPPGTAESQTLMIPASDSVDVGSSPCPSMMDVQDQLLLPVGFSSFESFNQPPPPAILDDSLSKHQEVIKSAAVANQVNSTTASIAGEFDHLIKAEALMSFAPEYGAVETPTGENSRLIFRNPYVPKSREVETANSSSNSYVYSATPPLSPCFDACEEKSGVTVNPKAGTARHDTGSIIQSKKYYTHIESGKEKNDDKLSGYVRSCASRETQVAQSPFSGFNSTNSVKGIHNKTDKANEGLLKAGSSGQSIKTVLATEVECLMCQAFMCKIRHTLLSSSGCLPVGMSRMSGSTSRNQSQGEAVVTGDNLSIKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPTAGLESGHSVQHNSFIEDSMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADSNDGSFGWLALQEQWRRGFSCRPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVPASFTLTLLQNDIKAALKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISLSVGEPISPSQSSAGGSSGLRDGIRVDEASERRLSQDTCLSESENLLGSRLRPTLAAVPYPAILLGYQDDWLKTSPSSLQIWEKAPFEPYAMPKNMTYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNASSGFVLIDCPQSMKIDSSNASMLGSISDYFLALSNGWDLESYLKSLSKVLRNLKLSSCLTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVIESSIAVGSVVLSSDKERRSTLHNQVGKALSYSAAVDEALSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELVILKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPLMMQMTSQVPGMWKDCVGPRGIGTSLQRETDLDASLRPGSWDNWQTSRGGGLGCEPNRIRDFSFQDEIRYLFEPLYVLAEPGSLDRGLSFPISGNPMTESSKLLSDDGTSGGDTGLNTQSETSEPDGFGSARQRSLPSLHCCYDWTEDWRWLVCIWTDSRGELLDNHIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACSPEAANAKPRDFVIARVGSFLELECQEWQKALYSIGGSEVKKWSLQLRRSVPDGMTASSNGTSLPQQEIGGLSQPSTRKQLIGGQGIADNSRGLLQWVQSISFVSLSVDHSLQLMVQAESTSLGTSQSSGIMSQPGYLEGYTPVKSLGSTPTSYILIPSPNMRFLPPIGLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARSISKEEWPSILSVSLVDYYGGSNIIQEKFLKGVVKTGGRGTGSEARDVETATHLILENIAAELHALSWMTVSPAYLERRSALPFHCDTVLRLRRLLHFADKEVSRQPEKSQGLSSSRTLLADDATPISGSTEAEKAISKPSKVQAVLKGIKQSPKKVNLVAALVRGMRVEDALLQLQVTVKRAAKTVYQVIHSARANAVHNHGFDPDRLLVAEAFLGKGLFKKRLSYHAKGKCGMMVRPECRLTVVLREITPEEEAEIAKLRVSNFKKLSKRERRLVPHKLIETTPIWNRKGKPRSSGAGAVAE
Length2171
PositionKinase
OrganismCapsicum baccatum (Peruvian pepper)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Solanoideae> Capsiceae> Capsicum.
Aromaticity0.07
Grand average of hydropathy-0.240
Instability index51.60
Isoelectric point6.16
Molecular weight235182.34
Publications
PubMed=29089032

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. The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. This protein binds specifically to 23S rRNA. 
GO - Cellular Component
large ribosomal subunit	GO:0015934	IEA:InterPro
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
structural constituent of ribosome	GO:0003735	IEA:InterPro
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro
translation	GO:0006412	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP15843
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.57|      31|      33|     381|     412|       1
---------------------------------------------------------------------------
  381-  412 (57.01/39.34)	WLQ.NWIGPSLSF.TSSFMHCFDYhSDAKVNSMD
  415-  447 (46.56/26.38)	WLDaNVIGSNRRYnSSSNSNCSSL.SSTSTSSSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     260.16|      82|     363|     451|     534|       2
---------------------------------------------------------------------------
  451-  534 (135.46/65.97)	KTSGTGD.....LEADADSLMCrQSGLSSLDR...SQNDNLKTGFKRSRTGISESFSQGGAVV...NPS.TSDYASMEVNNSAITGGNDQlGLQWG
  810-  903 (124.69/54.75)	KAGSSGQsiktvLATEVECLMC.QAFMCKIRHtllSSSGCLPVGMSRMSGSTSRNQSQGEAVVtgdNLSiKSEMKKKEIIPVRIAGDIDG.GLLDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.25|      24|      39|     238|     262|       3
---------------------------------------------------------------------------
  238-  262 (41.28/27.45)	ASNvSGEGLPVIVSPHGMRGRLTGC
  280-  303 (45.97/26.53)	ASN.GIVGLPCNVSQSGYQLKGQNC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     147.75|      44|     817|     756|     802|       4
---------------------------------------------------------------------------
  756-  802 (72.46/44.54)	ESGKEKNDDKLSGyvrSCASRETQVAQSPFSGFNST..NSVKGIHNKTD
 1551- 1596 (75.29/39.35)	ESSKLLSDDGTSG...GDTGLNTQSETSEPDGFGSArqRSLPSLHCCYD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     355.25|     134|     817|     905|    1096|       5
---------------------------------------------------------------------------
   89-  146 (59.53/12.29)	STWTNSFVGPWDPSQGLYNP.DEKIKLWLFLPGQHSSVVEKAQSAVSKlrvLASGLWVA............................................................................................................
  933- 1096 (189.84/209.84)	SVQHNSFIEDSMLAYGLRQPlQELLDGMALLVQQATSLVDVALDADSN...DGSFGWLAlqeqwrrgfscrpsmvhagcggvLAscHSLDIAGVELidPLSADVPASFTLTLLQNDIKAALKSAFGTMEGpLSVVDWCKGRSQSNDGGISGdGFSAESTASASECRD
 1836- 1914 (105.88/46.02)	..................................................................................LA..HLLHSKGCAI..PLSTGFVVSKAVPTMRRDARSISKEEWPSILS.VSLVDYYGGSNIIQEKFLKG.VVKTGGRGTGSEARD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     156.73|      48|     122|     547|     594|       6
---------------------------------------------------------------------------
  547-  594 (87.27/48.94)	QALLSEFGDFGDFF....ENDALPFGEP..PGTAESQTLMIPASDSVDVGS...SPC
  663-  719 (69.46/37.38)	EALMSFAPEYGAVEtptgENSRLIFRNPyvPKSREVETANSSSNSYVYSATpplSPC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.25|      14|      25|    1462|    1475|       7
---------------------------------------------------------------------------
 1462- 1475 (31.23/16.60)	PGMWKDCVGPRGIG
 1490- 1503 (31.02/16.44)	PGSWDNWQTSRGGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     254.09|      82|     624|    1113|    1199|       8
---------------------------------------------------------------------------
 1113- 1199 (132.93/96.63)	QSSAGGSSGLRDgiRVDEASERRLSQDTCLS...ESENL.LGSrlRPTLAAVPYPAILLGYQD.DWLKTSPSSlQIWEKAP...FEP...YAMPKNMT
 1738- 1830 (121.16/73.32)	QGIADNSRGLLQ..WVQSISFVSLSVDHSLQlmvQAESTsLGT..SQSSGIMSQPGYLEGYTPvKSLGSTPTS.YILIPSPnmrFLPpigLQLPTCLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.52|      10|      25|    1507|    1516|      11
---------------------------------------------------------------------------
 1507- 1516 (19.93/11.33)	EPNRI.RDFSF
 1532- 1542 (14.59/ 6.07)	EPGSLdRGLSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.09|      11|    1891|      40|      50|      12
---------------------------------------------------------------------------
   40-   50 (23.17/15.81)	LHQISWFQFLP
 1930- 1940 (21.92/14.48)	LHALSWMTVSP
---------------------------------------------------------------------------




































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 MDP15843 with Med13 domain of Kingdom Viridiplantae
Unable to open file!