<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 MDP12597

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVVEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFNSDAKVNSTDGSWLDANITRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKISGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQTGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLGKQQEVIKSTAVTNQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGKRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTQKANEVLLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNLSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGNLMAESSKLLLDDGTSGNFMQSSASSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGASLQQQEIGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMFQADIVSHGTSQSSGVVSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARGISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGASSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1930
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-0.216
Instability index53.05
Isoelectric point5.42
Molecular weight208669.81
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

>MDP12597
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     561.98|     231|     827|     656|    1037|       1
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  500-  685 (145.74/153.98)	.................................................................................................................................FFENDVLPFG..EP.PGTAESQALMFPAA....DSA.DVGSSPCP.SMMDVQDQMllPVGFPSFDSFNQppppASLDDSLGKQQEVikSTAVTNQVNNASAAIAGEFD.HLIKAEALMTFAPEYGAVETP...........tgekphsifrnpylpksrevdtsnsssnsyvysatpPLSPcfdaCEEKSGVTvNLKTGAgKRDTSS
  752- 1072 (311.83/285.07)	ADSFGQSMKTVLATeveC.LMCQAFMCkirhtlLSSSSYLPVGASRMSGSTIINQPQGeavVTVDNlSSKSEMKKKEIIPVRIAGDIDgglLDGTLNAPVGVWRSVGVSKGMkqpssaleachsvqhnsFIEESMLAYGlrQPlQELLDGMALLVQQAtslvDVAlDADNNDGPyGWLALQEQW..RRGFSCGPSMVH....AGCGGVLASCHSL..DIAGVELIDPLSADVQASFTlTLLQNDIKTAMKSAFGTMEGPlsvvdwckgrsqsndggisgdgfsaestasasecrdssstisfsvgePISP....SQSSAGGS.SLKDGI.RVDEAS
 1154- 1249 (104.41/20.63)	ATDFFQQLGTVYET...CkLGTHSPQC......MGNEMEIDSGKNVSSGFVLIDCPQS...MKIDS.SSTSMLGSISDYFLSLSNGWD...LESYLKSLSKVLRNLKLSSCM................................................................................................................................................................................................................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     285.16|      86|     122|    1375|    1469|       2
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 1375- 1469 (144.50/98.24)	GSSSDMVQSSSMSGRSHpvlmqmtsPVPGMWKDCVGPRSIGTSLQRE.AELDASL.RSGSWD....NWQTSRGGSLGCDPNRIGDFSIQDEVRYLfEPLYI
 1500- 1591 (140.66/77.78)	GTSGNFMQSSASSGGGD........TGPNTQSETSEPDGSGSAHQKSlPSLHCCYgWTEDWRwlvcIWTDSRGELLDNYIYPFGGISSRQDTKGL.QSLFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.60|      24|     831|    1005|    1037|       3
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  386-  409 (43.20/16.78)	SSDSDYKISGAG.DLEADADSLMCR
 1012- 1036 (38.40/19.75)	SQSNDGGISGDGfSAESTASASECR
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.62|      33|     976|     300|     333|       5
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  301-  333 (62.23/41.11)	PEAILVPVVQTACARSSL.......KRFWLQNWIGPSLSF
 1273- 1312 (48.40/25.41)	PLAVLQTVVESSIAVGSVvlssdkeRRSTLQNQVGKALSY
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.08|      36|    1108|     620|     655|       6
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  620-  655 (63.42/33.29)	TGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATP
 1729- 1764 (61.66/32.16)	TSQSSGVVSQPGYLEGYTPVKSLGSTSTSYILIPSP
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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 MDP12597 with Med13 domain of Kingdom Viridiplantae
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