<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 MDP16989

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSHCSCCSPHPRSTPATARPLSQQKDAATFSVISAHLRLQNDGFLSTWTNSFVGPWDPSQGVHNPDEKIKLWLFIPGRHSSLVEPAQAAVSKLRVVGRGVWLAPGDSEEVAVALSQAFRNSIERAFRGLSYVRFGDVFAKSHSASSGKSFRKAHPTCEFIFAATEEAIYIHVIISAKHLRNLNDDDIERVLKRSSSNSVRKGLPVFVSPNGMRGRLTGCCPTDLVKQVYTSKLKANNESAHVLPSISRSTGYQLRGQNCFVEVTLGCPSTSNKDAQERKRNQEITSVTPKSEEPCLASSGKNQQFDPFPILERTFIYPAESVLVPVLHRAFARSSLKRFFLKSWTGTSFHELWPFWNFPSSSQFLRWQSGLSSNDQFDNDGKKMVSKRLRSSVTDVFGQAATVASVTAQNAAKSEFSVVDANNSAIGGSANVQVGSSWDWDDDDRGIGIDIQSLLAEFGDFGDFFENDVLDFGEPPGTAESQVIVFPSVDCGDISGSPCTAGIDSPDQRISAVGLTSFENYNQPSSTFSEDTDGTKDAKSSVTITHSLESSNGKFDNLMKAEAMLTFSPEYAAVEICSSEFSISIFRNPYLPGSKKVETSLVPSCAHVYGATPPSPSVSDMEESFEKSSKLKPGIGLYAVSSGQLGKLYTLVKGVPKKIDSKLFNDVMPSHKGQKPSSLSVMKSSSGTSALQINNDSTFEAGHFLLSLETLLATEIECIIFQVAMCRIRHTLLSFNSRRPIGLNKLTGDAMLDLISYDTNSLPDVIPNKHEAKKKDMLPVRIAGDVHIGMLDAPLTSSVGVWRPVGVPKGTKPSNTCLPQNSPSLPHNLSNEETFGFRGQRQPLQELLDAIGLLVQQSASLVDVSLDMDDVDGSYSWLALEEQQRRGFSCGPSMVHAGCGGIFASCHYVDIAGIELIDPLSANVQVSNVISLLQSDIKLGLKSAFPSSEGPLSLTEWCRGRHQLGDSGASGDGHPFQYTIGEVKDPLSTVSLGGEPISPPQSGCVSSCIRDGVRIDDSTQRRSNQDICGSESDAQKFSSRFKPTLAALSLPALLVGYDDWLKTSVNCLQLWEKAPLEPYASPKPVSYFALCPDIDLLTSAGTDFFQQLGTVYEACKLGSHTLQINGGLMESSSGKLSSSGLLLVNCPQELKVASSNMLSISSITDYFVALSKCWNVKGYLNSVKKVLKGLKLAANPSPNHKERNVGPCMVVYVVCPFPEPTAVLQTVIECSAALGSGVLAPDKDRQSLLYNQVAKSLISSAAVDEASASNVVMLSGFRIPKLVLQIVTVDCLLRLNRPSKELGIFKEIAFTVYNKIRRIPRTASGADIFQSSAISGRPQSTLMHVTSPIPGIWKDCLAPRISGPALTREAELDSSLRPVPWDNSWQTRIGGLSSDPHRSVELCLQDDPRYVFEPLFVLAEPGSVEHAIFPAVLYNNMPECSSSKSSIEDNSSIYVQSSSTGGAAEIGKGSSHDGSEHDNRAANLHCSYGWTEDWRWLICVWTDSRGELLDCSIFPFGGISSRQDTKVLQNLFVQVLHHSCQILSSSSLDSGSRLRDIIITRIGCYFELECQEWQKAIYSVGGNDVKKWPVQLRRTAPDGVLNNSGASLEQQEISLIQERALPSSPSPLYNPHAKPSFIKGGLGQTNAKKQILAGQAGLDSSRGLLQLARSISLVSVSMDHTLHLILPSDLSSSGVGQSNSSSSGISNYLEGFSPVKSLGSMPGSYLLIPSPSMRFLPPSPLQLPTCLTSESPPLAHLLHSKGSAIPQSTGFVVSKSIPNPRKDFVEPIKEDCPSILSVGLVDHYGGQEKLAVAVGRGGGSAMAAKQGRSLGPEPVSRDYEVEANLVLESVAAELHSLSWMTVSPLYLERRSALPFHCDILLRLRRLLHYADKEFSKASEQLEPADTDL
Length1908
PositionKinase
OrganismDendrobium catenatum
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Asparagales> Orchidaceae> Epidendroideae> Malaxideae> Dendrobiinae> Dendrobium.
Aromaticity0.07
Grand average of hydropathy-0.189
Instability index53.69
Isoelectric point6.18
Molecular weight206742.62
Publications
PubMed=26754549
PubMed=28902843

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

>MDP16989
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     467.02|     189|     315|     468|     698|       1
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  476-  581 (118.16/73.68)	................................................................................................................................................................PGTAeSQVIVFPSvdcGDISGSPCTA..GIDSPDQRISAVGLTsfENYNQPSSTFSEDTDGT.KDA...KSSVTITHSLESSNGKFDNL.MKAEAMLTFSPEYAAVEICSSEF
  590-  697 (90.35/78.36)	YLPGSKKVETSLVPscahvygATPPSPSvsdmeesfEKSSKLKPGIGLYAVS..SGQLGKLYTLVK.......GV..P.KKIDSKLFNDVMPSHkgqkPSSLSVMKSS.......SGTS....ALQI.NNDS.............................................................................................................................................
 1179- 1426 (258.52/129.14)	YLNSVKKVLKGLKL.......AANPSPN........HKERNVGPCMVVYVVCpfPEPTAVLQTVIEcsaalgsGVlaPdKDRQSLLYNQVAKSL....ISSAAVDEASasnvvmlSGFRipklVLQIvTVDCllrlnrpskelgifkeiaftvynkirriPRTA.SGADIFQS...SAISGRPQSTlmHVTSPIPGIWKDCLA..PRISGPALTREAELDSSlRPVpwdNSWQTRIGGLSSDPHRSVELcLQDDPRYVFEPLFVLAEPGSVEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     342.75|      96|     585|     906|    1056|       2
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  860-  930 (94.15/50.49)	SLV..DVSLD..MDDV.DG..SYSWLALEEQQRRGFSCGPSMVhAG..CG.GIF...................................................aschyvdIAGIELIDPLSANVQVSNVI
  931- 1007 (119.63/108.89)	SLLQSDIKLG..LKSAFPS..SEGPLSLTEWCRGRHQLGDSGA.SG..DG.HPFQyTIGEVKDP...LSTVSLGGEPISPPQ.SGCVSS...........................................
 1607- 1671 (53.74/21.10)	SLEQQEISLI..QERALPS..SPSPL...............................................................ynphakpsfikgglgqtnakkqiLAGQAGLDSSRGLLQLARSI
 1672- 1749 (75.23/21.04)	SLVS..VSMDhtLHLILPSdlSSSGV.......GQSNSSSSGI.SNylEGfSPVK.SLGSMPGSyllIPSPSMRFLPPSPLQlPTCLTS...........................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.22|      41|     139|       2|      42|       3
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    2-   42 (75.59/45.60)	SHCSCCSPHPRSTPATARPLSQQKDAATF..SVISA.HLR.LQND
  141-  185 (57.63/32.86)	SHSASSGKSFRKAHPTCEFIFAATEEAIYihVIISAkHLRnLNDD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     167.29|      55|     301|      44|     111|       4
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   44-  111 (90.91/90.97)	FLSTWT.NSFVGPWdPsqgvhnpdekikLWLFIPG.....RHSSLVEPAQ......AAVSK.LR.....VVGRGVWLAPGDSEEVA
  340-  412 (76.38/50.10)	FLKSWTgTSFHELW.P............FWNFPSSsqflrWQSGLSSNDQfdndgkKMVSKrLRssvtdVFGQAATVASVTAQNAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.95|      21|     301|     735|     758|       5
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  735-  758 (29.95/31.18)	FNSR.RPIgLNKLTGDAMldLISYD
 1037- 1058 (33.00/20.64)	FSSRfKPT.LAALSLPAL..LVGYD
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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 MDP16989 with Med13 domain of Kingdom Viridiplantae
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