<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 MDP06607

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceVKLNQRDAAAQLVLSSHLQLQKDGFLSTWGNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHLSVADKAKAAVSKLRVLASGVWLAPGDSEEVAAALSQALRNCIERALIGLSYMRFGDVFSRYHPSSQGDELFSMSELTTSFVVPVLLVMKFLAISYLLLYISSSGLNYGCCLCRRGQPVLEFIFTATEEAVFVHVIISAKFVDFFLYFLSSAVFFIVSPHGMRGRLTGFCPGDLVKQLYFSSGKFKASNGIVGLPYQISQSSGCQLRGQNCYLEVTLGCETAESEKPLPSNSNRNFSKHHMSESPGVTRESEKGLAYHSSIYEKTFIYPAEAVLVPVVQTSSARSSLKRHLFYSLHFDQLSIILSKKFVFLCTKSFWLQNWMGPSLSGSSFSMQCDAFSAMDGSWHDSGIRSQHGYNSSGNSNNSSISTSTSSDSDYRMTGEAGDLEADADSLSCRQSGLTSADQMHIDGSKLGSKRSRTGITESYGQAGAVINAPMQDAYVEINNDQVGSQWDWDDDDRGTVMDIQALLSEFGDFGDFFVNDALPFGEPPGTEESQTPMFSATDGGDASSSPFTGMMDASDQMLLPLGFTSFESFNQPSTVVEESMSKNQEVTKDAVSSGSMNYNPPASTSEFDYLIKAEALMTFAPEYGAVETPTNDLLSSVIKSPYIPKSRTVESANSSTNNYVYSAIPPSPRHDISDDKPGIGANSKGGSGRQDKYSLLQSKKYYTHVESGKDKKDDKSSACDNIIASHEDAAPSMLSGFNSSNNAPRSSARNKMTEGVLLGGTENFLISSKTAIANELECIMFQAFMCRIRHTLLVPSSLMSVGLSRLSGNNVLYQMHGESNILQDNISSKYDIKKESVPVRIAGDLDGGLLDGPLNSPVGVWRTVGVAKGSKPMTPNMESFASLPHNSFNEEGMLSYGQRQPLLELLDGMPLLFQQATSFVDVTLDADYGDGPYGWLAMQEQWRRGFSCGPSLVHAGCGGVLASCHSLDIAGVELADPLSADVHASYAITLLQSDIKSALKLAFGTFDGPLSVTDWCKGRNGQSGLGDGFSAESSASINDCRDSSSTAMSVEPISPSQSAVDEASDRRSNQDICITESEQQLALRPALLVVPIPAILVGYQDDWLKTSASSLQHWEKAPFEPYAMQKHMNYCVVCPDIDPLTTAAADFFQQLETVYETCKLGTHSPQNLGNPTAKDSGKWSSSGFVLLDCPQSMKIESDSASLVGSISDYFLSLSNGWDLTSFLKSLSKVLKALKLGSCFAPNSKEGSSTPCTVIYVVCPFPEPVAVLKTIVESCVAVGSAIFPSADKERRSAMQNQVGKALSCSTAVDEASISNVVTISGFSIPKLVLQVVTVDAIFRVTSPSLNEPVILKEIAFTVYNKARRISRGSSTEVIPSVSMPGRSQSHSTMMQMNSPIPGMWKDSIGPRMVGPTLQREGELDASLRSGTWDNSWQMSRTGGLGGDPNRSGDYLLQEELKYMFEPLFILAEPGSSERGVSPESLKLLSDDGTSSDVGLGSQIDGMDDGFGSAHQKTSPSLHCCYGWTEDWRWLVCIWTDARGELLDSYTFPFGGISSRQDTKGLQFLFVQILQQGCQILQACSPDTTTARPRDFVITRIGCFFELECQEWQKALYSIGGSEVKKWSLHLRRSVPDGMPASSNGGSLQQQEMSIIQDRNLPSHTKASTFMKGGLGQPSSRKQLLSSGGHMAMDNSKGLLQWVQSITFVSISVDHSLQLVYQADSSPGFTPVKSLGSASASYIFVPSPSMRFLPPNPLQLPTCLTSESPPLAHLLHSKGSAIPISTGFVVSKAVPSMRKDSRSNCKEEWPSILSVGLFDYYGGNNNNSEKTSKKSGLENHLILERVAAELHALSWMTVSPAYLERRTSLPFHCDMVLRLRRLLHFADKEVSQLSVKSEL
Length1920
PositionKinase
OrganismCynara cardunculus var. scolymus (Globe artichoke) (Cynara scolymus)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> campanulids> Asterales> Asteraceae> Carduoideae> Cardueae> Carduinae> Cynara.
Aromaticity0.08
Grand average of hydropathy-0.208
Instability index52.38
Isoelectric point5.44
Molecular weight208720.06
Publications
PubMed=26786968

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
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

>MDP06607
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     205.18|      67|      78|     888|     962|       1
---------------------------------------------------------------------------
  888-  962 (104.18/76.83)	WRTvGVAKGSKPMTPNMESFASLPHnSFNEEGM.LSygqrQPL.LELLDGMPLLFQQatSFVDVTLDADYG..DGPYG...W
  969- 1042 (101.00/53.94)	WRR.GFSCGPSLVHAGCGGVLASCH.SLDIAGVeLA....DPLsADVHASYAITLLQ..SDIKSALKLAFGtfDGPLSvtdW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     158.16|      48|     115|     532|     592|       3
---------------------------------------------------------------------------
  200-  252 (78.76/33.26)	KFVDFFLYFLSSAVFFIVSPHGMRGRLTGFCP...GDlvkqlYFSS...GKFKASNGIV
  532-  585 (79.40/46.05)	EFGDFGDFFVNDALPFGEPPGTEESQTPMFSAtdgGD.....ASSSpftGMMDASDQML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.04|      15|    1006|     822|     837|       4
---------------------------------------------------------------------------
  822-  837 (24.30/19.05)	PsSLMSVGL.SRLSGNN
 1831- 1846 (25.74/14.84)	P.SILSVGLfDYYGGNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.07|      30|     118|     480|     515|       6
---------------------------------------------------------------------------
  482-  515 (48.49/42.52)	ITESYGQAgAVINAPMqdaYVEINNDQVGSQWDW
 1101- 1130 (54.58/28.45)	ITESEQQL.ALRPALL...VVPIPAILVGYQDDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.69|      24|     118|     738|     766|       7
---------------------------------------------------------------------------
  392-  418 (42.30/20.22)	SMQCDAFSAmdgSWHDSGIRSQHGYNS
  743-  766 (43.39/21.07)	SSACDNIIA...SHEDAAPSMLSGFNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.48|      21|     122|    1146|    1166|       8
---------------------------------------------------------------------------
 1146- 1166 (44.43/31.49)	FEPYAMQKHMNYC....VVCPDIDP
 1266- 1290 (37.05/24.80)	FAPNSKEGSSTPCtviyVVCPFPEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     203.29|      48|     498|    1186|    1240|       9
---------------------------------------------------------------------------
 1186- 1234 (78.01/47.53)	KLGTHSPQNLGNPTAKDSGKWSSSGFVLLDCPQSMKIESDSASLVgSIS
 1687- 1733 (74.99/40.54)	KASTFMKGGLGQPSSRKQ.LLSSGGHMAMDNSKGLLQWVQSITFV.SIS
 1785- 1824 (50.30/22.51)	.LTSESPPLAHLLHSKGSAIPISTGFVVSKAVPSMRKDSRS........
---------------------------------------------------------------------------




































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 MDP06607 with Med13 domain of Kingdom Viridiplantae
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