<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 MDP12576

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVVEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFNSDAKVNSTDGSWLDANITRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKISGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQTGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLGKQQEVIKSTAVTNQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGKRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTQKANEVLLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNLSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGNLMAESSKLLLDDGTSGNFMQSSASSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGASLQQQEIGLIQERALPSSPSPLYSPHSKVSSFMKGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMFQADIVSHGTSQSSGVVSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARGISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGASSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1957
PositionKinase
OrganismNicotiana sylvestris (Wood tobacco) (South American tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.07
Grand average of hydropathy-0.218
Instability index53.63
Isoelectric point5.49
Molecular weight211596.16
Publications
PubMed=23773524

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

>MDP12576
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.99|      39|      78|     831|     907|       1
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  831-  875 (57.86/70.79)	VRIAGDIDGGllDGTLN..APVGVWRSvGVSKGmkqPSSALEACHSV
  912-  952 (72.13/23.61)	VDVALDADNN..DGPYGwlALQEQWRR.GFSCG...PSMVHAGCGGV
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.29|      20|      78|    1223|    1246|       2
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  110-  134 (25.08/ 7.07)	LASGlWvapgDSEEVAAALSQALRN
 1223- 1242 (36.21/24.10)	LSNG.W....DLESYLKSLSKVLRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     331.33|     109|     122|     396|     517|       5
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  396-  517 (163.53/146.86)	AGDlEADADSLMCrPSGLSSVDQSQndnLKAGFKRsrtgiSESFSQ..AGAVINPSTSDYASMeVNNSAITGG.NDQTGLQWGwdDDDRGVGMD.IQALLSEFG....DFGD....FFENDVLPFGEPPGTAES
  524-  644 (167.80/110.61)	AAD.SADVGSSPC.PSMMDVQDQML...LPVGFPS.....FDSFNQppPPASLDDSLGKQQEV.IKSTAVTNQvNNASAAIAG..EFDHLIKAEaLMTFAPEYGavetPTGEkphsIFRNPYLPKSREVDTSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     585.57|     159|     222|    1473|    1640|       6
---------------------------------------------------------------------------
 1375- 1469 (98.04/42.99)	......................................GSSSDMVQSSSMSGRSHpvlmqmtsPVPGMWKDCVGPRSIGTSLQRE.AELDASL.RSGSWD....NWQTSRGGSL....GCDPNRIGDFSIQDEVRYLfEPLYI.....................................................
 1473- 1640 (264.07/154.99)	PGS.....LDRGLSFP......MSGNLMAESSKLLLDDGTSGNFMQSSASSGGGD........TGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELL....DNYIYPFGGISSRQDTKGL.QSLFVQILQ.QGCQILQACPPESAIAKP...RDfviARiGsffeLECQEWQKALyAIG
 1691- 1859 (223.47/112.82)	PHSkvssfMKGGMGQPstrkqlIGGQGMVDNSRGLLQWVQSISFVSVSIDH...S........LQLMFQADIVSHGTSQSSGVVSQP......GYLEGYTPVKSLGSTSTSYILipspNMRFLPPVGLQLRTCLTAE.SPPLAHLLHsKGCAIPLSTGFVVSKAVPtmrRD...AR.G....ISKEEWPSVL.SVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.67|      44|     977|     290|     333|       7
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  290-  333 (82.39/57.75)	IKESSRMLIYP...................PEAILVPVVQTACARSSL.......KRFWLQNWIGPSLSF
 1243- 1312 (58.27/38.33)	LKLSSCMTMNPkegstgpctviyvvcpfpePLAVLQTVVESSIAVGSVvlssdkeRRSTLQNQVGKALSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.62|      33|      39|    1007|    1045|       8
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 1010- 1045 (55.87/39.52)	GR....SQSNDGGIS.GDGFSAEstaSASECRDSSST.ISFS
 1047- 1085 (43.75/16.77)	GEpispSQSSAGGSSlKDGIRVD...EASERRLSQDTcLSES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.81|      16|     825|     376|     391|       9
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  376-  391 (28.11/13.87)	SSSVSSVSTS..SSDSDY
 1202- 1219 (24.70/11.19)	SMKIDSSSTSmlGSISDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     156.89|      47|     385|     752|     807|      10
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  752-  807 (73.60/68.22)	ADSFGQSMKTVLATeveC.LMCQAFMCkirhtlLSSSSYLPVGASRMSGSTIINQPQ
 1154- 1201 (83.29/54.90)	ATDFFQQLGTVYET...CkLGTHSPQC......MGNEMEIDSGKNVSSGFVLIDCPQ
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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 MDP12576 with Med13 domain of Kingdom Viridiplantae
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