<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 MDP10916

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVVEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSLMHCFDFSSDAKVDSTDGSWLDANIMRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKTSGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFNQAGAVINPSTSDYASMEVNNSAITGGNDQTGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADIGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLSKQQEVIKSTAVANQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKSHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEGKSGVTVNLKTGAGRRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTEKANEALLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNMSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSVESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLILQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGNLMAESSKLLLDDGTSGNFMQSSASSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGVSSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGTSLQQQEIGLIQERALPPSPSPLYNPHSKVSSFMKGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMFQADIVSHGASQSSGVVSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARSISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGTGSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPVKTQV
Length1957
PositionKinase
OrganismNicotiana attenuata (Coyote 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-0.216
Instability index54.25
Isoelectric point5.49
Molecular weight211597.23
Publications









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

>MDP10916
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.35|      36|      38|    1010|    1045|       1
---------------------------------------------------------------------------
  384-  411 (39.00/18.85)	TS....SSDSDYKTS.GAG.DLEADADSLMCRPS........
 1010- 1045 (65.24/37.37)	GR....SQSNDGGIS.GDGFSVESTASASECRDSSST.ISFS
 1047- 1085 (40.10/19.63)	GEpispSQSSAGGSSlKDGIRVD...EASERRLSQDTcLSES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     415.89|      95|     122|    1375|    1469|       2
---------------------------------------------------------------------------
 1375- 1469 (167.44/97.88)	GSSSDMVQSSSMSGRSHPVLMQMTSPVP...GMWKDCVGPRSIGTSLQRE.AELDASL.RSGSWD....NWQTSRGGSLGCDPNRIGDFSIQDEVRYL...FEPLYI
 1500- 1591 (132.65/75.71)	GTSGNFMQSSASSGGGD........TGP...NTQSETSEPDGSGSAHQKSlPSLHCCYgWTEDWRwlvcIWTDSRGELLDNYIYPFGGVSSRQDTKGL....QSLFV
 1603- 1689 (115.80/64.98)	ACPPE....SAIAKPRDFVIARIGSFFElecQEWQKAL..YAIGGSEVKK.WSL..QL.RRSVPD....GMSASSNGT.SLQQQEIG..LIQE..RALppsPSPLY.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     163.13|      46|     641|    1173|    1239|       3
---------------------------------------------------------------------------
  617-  662 (82.87/34.93)	ETPTGEKSHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFD
 1183- 1228 (80.26/47.15)	EIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     145.21|      45|     959|     289|     333|       4
---------------------------------------------------------------------------
  289-  333 (84.66/54.90)	NIKESSRMLIYP...................PEAILVPVVQTACARSSL.......KRFWLQNWIGPSLSF
 1242- 1312 (60.55/37.00)	NLKLSSCMTMNPkegstgpctviyvvcpfpePLAVLQTVVESSIAVGSVvlssdkeRRSTLQNQVGKALSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.71|      40|     959|     779|     821|       5
---------------------------------------------------------------------------
  779-  821 (59.08/39.63)	IRHT..LLSSSSYLPVGASRMSGstIINQPqG..EAVVTVDNMSSKS
 1739- 1782 (59.63/31.20)	IDHSlqLMFQADIVSHGASQSSG..VVSQP.GylEGYTPVKSLGSTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.18|      24|      40|     486|     511|      16
---------------------------------------------------------------------------
  486-  511 (40.26/33.28)	DIQAllSEFGDFGDFFENDVLPFGEP
  529-  552 (46.92/32.24)	DIGS..SPCPSMMDVQDQMLLPVGFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.71|      28|    1158|     669|     698|      17
---------------------------------------------------------------------------
  669-  698 (43.56/39.52)	GVTVNLKTGAGRRDTSSIiqSKRYYTHIES
 1830- 1857 (49.15/37.03)	GFVVSKAVPTMRRDARSI..SKEEWPSVLS
---------------------------------------------------------------------------




































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 MDP10916 with Med13 domain of Kingdom Viridiplantae
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