<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 MDP08897

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceGDLQTVSWFQFLPFESDANALSEKSLKAEQKDSATYLVISAHLQLQSEGFLSTWTNSFVGPWDPSQGAHNPDEKIKLWLFLPGRHSSVVEHAQAAVSRLRVVGTGLWLTPGDSEEVSVALSQALRNSIERALKGLSYVRFGDVFSRCNPLTKSEKSFRRAQPTFEFIFAATEEAIYVHVVISAKYIRGLDGDDIERILIHSSSHSIGEGLPVIVAPNGMLGRLTGCCPSDLVKQVIISKLKPSQGSTSGVPYNAQSSSPQLRGQNCYVEVALGCPSPSTDTVSELHNNQNNKAMHNTEDSQLMAAGGQRKLGSNNQFPVLERTFIYPAEAVIVPMMHRALARISSKSLALGSTCCGDSPCGFGMNLVRLHKHLNSSSNSITSSISSVSSTSSESAAGGGDLEADADSLACRQSGLSSNSQFQKDGLKMVSKRPRSDAEAFAQDGKVLGENIQYADANNSAAVGVANAQGISLWGWEEDAVVMDIQILLSEFGDFGDFFEHDVLTFGEPPGTAESQAIIFPADDCGDITGSPCTAGMDIPDQKLSPVGLASFEGFNNLSMELIEDSRTKNAESLKETKSAATISQSLVSTAGKFDYLTKAEAMLTFAPEYAAIDVPASEVAASIFTVPYLPGSKKAGSAHSSSSGYVYNAAPPSSVELPEEKSQTSNILKAGSLGHDVSSIQSLKSYTLIQGGTKEIATRPTNNNVHSCKEEAPSSVSGVTSLSSSLALQKRSESMFDAGHFLLPLKTAFATEIECIMFQAALCRIRHTLLSLSNRVPIGLKNSIADLIHTDSKSGIMNAKYEIKKKDSIPVRIAGDIDGGMHDTLMAQVGVWRSVGVPKGIKPLNLRNSENPSSLPVNTLTDEGLNVYMQRQSLMDLLDAMSLLVQQSASFVDIALDTDDGDSSYSWLALQEQRRRGFSCGPSMVHAGCGGLLATGHSVDIAGIDLVDPLAANVPVTAVISLLQSDIKSALKSAFGNVDGPMPVIDWCMGRSQSGDSGSAGDGYSFQYPNSETRDSSNTVTLGGESMSPSQSTGASSSIRDGGRSDDSAQRRLSQDTNSETEHKGYSRFKPTFADDWLKTSPNCLKLWEKAPLEPYALPKPVNYYAVCPDIDLLTSAAADFFQQLGTVYEACKLGTHAPHNSEGQMELSSGKCLPPGLVLLECPQQTKIGSSHITVISSISEYFLALSKSWNVKSFTKSLKKVIKDLKLSSSSSANQKEGSSRLCTVVYVVCPFPEPSAVLQTLLECSVSLGSVVFSTDRERRSLLHSQVVKALDCSIAADEASASNVIMLSGFSIPKLVLQIVTVETLLRINWPTNELALFKDIAFTVYNKARRISRAVSTNDMLQSTAFSGRSTLMHVTSPIPSLWKDCLVPRMSGPALTREAEFDAALRSGTWDNSWQASRTSVYDPTKPSDLCGQEDGRYMFEPLFILADPGSIEHSAVMEFSSSKSAVDDSSSAYNQSSTLGGNSDTGTASLTDGTEHEHKTASLHCCYGWTEDWRWLVCVWTDSRGELLDSHIFPFGGISSRQDTKVLQSLFIQVLQQGCQILSWSHDGGNIRSRDIVITRFGCFLELECQEWQKAIYSFGGNEVKKWPLQLRRSIPDGIPSNINGTSLQQQEMGLLQERNLPSSPSATLYSPHSKSSFMKGSLGQPSTKKQLLGGQTGVDSSKGGLLQLVQSISLVGVSIDHSLHLILQADISSSGGGTQNSNSQLAYLEGFSPVKSIGSTPASYLLIPSPSMRYLSPNTMQLPTCLTSESPPLAHLLHSKGSAMPIATGYVVSKAIPPMRKDLAEPTKEDWPSILSVSLVDHYGGSNSVNIQEKVVRNSGGKQARIFTPDTSGRDYEMEIRTVLESVAAELHSLSWMTASPVFLERRTALPFHCDILLRLRRLLHYADKELSRPPDKTEQVVCNVVHRSSSTYAQSQKNKEFTAFFDKQAN
Length1939
PositionKinase
OrganismAnanas comosus (Pineapple) (Ananas ananas)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Bromeliaceae> Bromelioideae> Ananas.
Aromaticity0.07
Grand average of hydropathy-0.219
Instability index56.52
Isoelectric point5.76
Molecular weight209434.57
Publications
PubMed=27374615

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. 
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

>MDP08897
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.58|      48|      81|     421|     469|       2
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  421-  469 (76.46/48.72)	FQKDGLKMVSKRPRSDAEA..FAQD..GKVLG....ENIQYADaNNSAAVGVANAQG
  498-  553 (70.12/40.34)	FEHDVLTFGEPPGTAESQAiiFPADdcGDITGspctAGMDIPD.QKLSPVGLASFEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      87.74|      26|      27|    1224|    1249|       7
---------------------------------------------------------------------------
 1224- 1243 (29.97/18.08)	.......LCTV.........VYVVCPFPEPSAVLQT
 1244- 1268 (34.38/22.03)	LLECSVsLGSV.........VF..STDRERRSLLHS
 1273- 1302 (23.40/12.20)	ALDCSI.....aadeasasnVIMLSGFSIPKLVLQ.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.98|      19|      27|     373|     391|       8
---------------------------------------------------------------------------
  373-  391 (29.48/13.38)	LNSSSNSITSSISSVSSTS
  401-  419 (31.49/14.79)	LEADADSLACRQSGLSSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     147.17|      45|     976|     629|     692|       9
---------------------------------------------------------------------------
  629-  675 (75.00/66.46)	LPGSKkaGSAHSSSSGYVY.NAAPPSSVELPE.EKSQTSNILKAGSLGH
 1764- 1810 (72.17/32.41)	LLHSK..GSAMPIATGYVVsKAIPPMRKDLAEpTKEDWPSILSVSLVDH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.58|      18|      27|      77|      94|      10
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   77-   94 (32.85/22.56)	LWLFLPGRHSSVVEHAQA
  106-  123 (30.73/20.53)	LWLTPGDSEEVSVALSQA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     355.07|     113|     726|     903|    1029|      11
---------------------------------------------------------------------------
  903- 1029 (174.53/142.36)	SSYSWLAL.QEQRRRGFSCGPSMVHAGCGGLLATGHSVDIAGIDlVDplaanvpvTAVISLLQSDIKSAlKSAFGNVDGPMPVIDwcmGRSQSGDSGSAGDGYsFQYPNSETRD.SSNTVTLGG..ESMSP
 1643- 1759 (180.53/110.46)	SSFMKGSLgQPSTKKQLLGGQTGVDSSKGGLLQLVQSISLVGVS.ID........HSLHLILQADISSS.GGGTQNSNSQLAYLE...GFSPVKSIGSTPASY.LLIPSPSMRYlSPNTMQLPTclTSESP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.86|      14|      83|    1389|    1412|      13
---------------------------------------------------------------------------
   53-   66 (30.71/ 8.97)	TWTNSF....VGPWDPSQ
 1395- 1412 (24.15/12.74)	TWDNSWqasrTSVYDPTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.47|      19|     732|     706|     724|      18
---------------------------------------------------------------------------
  706-  724 (33.80/18.99)	HSCKEEAPSSVSGVTSLSS
 1440- 1458 (32.67/18.10)	HSAVMEFSSSKSAVDDSSS
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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 MDP08897 with Med13 domain of Kingdom Viridiplantae
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