<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 MDP12326

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVLEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGFQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFNSDAKVNSTDGSWLDANITRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKISGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQIGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLGKQQEVIKSTAVANQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGKRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTQKANEVLLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNLSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGNLMAESSKLLLDDGTSGNFMQSSASSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGASLQQQEIGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMLQADIVSHGTSQSSGVLSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARGISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGASSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1930
PositionKinase
OrganismNicotiana tabacum (Common 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-0.210
Instability index53.43
Isoelectric point5.42
Molecular weight208629.88
Publications
PubMed=24807620

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

>MDP12326
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.50|      20|      45|     416|     435|       1
---------------------------------------------------------------------------
  416-  435 (34.82/18.89)	VDQSQ....ND..NLKAGFKRSRTGI
  458-  483 (28.68/14.29)	VNNSAitggNDqiGLQWGWDDDDRGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     353.80|     115|     124|    1417|    1539|       2
---------------------------------------------------------------------------
 1417- 1539 (181.11/124.28)	SLQREAELDASLRsgsW..DNWQTSRGGSLGCDPNRIGDFSIQDEVRYLfEPLYI.LAEPGSLDRGLSFPMSGnlMAESSKLLLddGTSGNFMQ......SSA..SSGGGDTGP.NTQSETSEPDG.SGSAHQKSL
 1541- 1668 (172.69/97.84)	SLHCCYGWTEDWR...WlvCIWTDSRGELLDNYIYPFGGISSRQDTKGL.QSLFVqILQQGCQILQACPPESA..IAKPRDFVI..ARIGSFFElecqewQKAlyAIGGSEVKKwSLQLRRSVPDGmSASSNGASL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.66|      17|     126|    1128|    1145|       4
---------------------------------------------------------------------------
 1128- 1145 (33.51/25.78)	PFEPYAMPKHMsYYVVCP
 1253- 1269 (35.16/22.02)	PKEGSTGPCTV.IYVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     176.75|      40|     827|     376|     415|       6
---------------------------------------------------------------------------
  376-  415 (68.93/37.30)	SSSVSSVSTS..SSDSDY..KISGAG.DLEADADSL..MCRPSGLSS
 1005- 1036 (34.26/13.99)	...VDWCKGR..SQSNDG..GISGDGfSAESTASAS..ECR......
 1038- 1059 (22.52/ 6.09)	SSSTISFSVG..EPISPS..QSSAGG.....................
 1202- 1247 (51.05/25.28)	SMKIDSSSTSmlGSISDYflSLSNGW.DLESYLKSLskVLRNLKLSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     331.71|      93|    1112|     563|     657|       7
---------------------------------------------------------------------------
  563-  657 (146.13/97.67)	PASLDDSLGKQQEVIKSTAVANQVNNASaAIAGEFDHLIKaEALMTFAPEY....GAVETPTGEKPHSIFRNP.Y.LPKSREVDTSNSSSNSYVYSATPPL
 1148- 1200 (46.20/22.14)	.........................................NALTTAATDFfqqlGTVYETCKLGTHS....P.QcMGNEMEIDSGKNVSSGFVLIDCP..
 1679- 1766 (139.37/85.21)	PSTRKQLIGGQGMVDNSRGLLQWVQSIS.FVSVSIDHSLQ...LMLQA.......DIVSHGTSQS.SGVLSQPgY.LEGYTPVKSLGSTSTSYILIPSPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     146.38|      39|    1112|     180|     218|       8
---------------------------------------------------------------------------
  180-  218 (64.85/41.12)	EEAIF......V.H...........VIISA.KHIRALSSGDIDK.......ISEDTSNV...SGERLP
 1282- 1332 (40.00/22.06)	ESSIA......VgS...........VVLSSdKERRSTLQNQVGKalsysaaVDESLSNVltlSGFCIP
 1341- 1392 (41.52/23.23)	VDAIFrvtspaL.SellvlkeiaftVYNKA.RRISRGSSSDMVQ...........SSSM...SGRSHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     170.28|      44|      78|     831|     875|       9
---------------------------------------------------------------------------
  831-  875 (73.31/49.37)	VRIAGDIDGGLLDGTLN..APVGVWRSvGVSKGMKQPSSALEACHSV
  881-  910 (30.02/13.62)	......IEESMLAYGLR..QPLQELLD.GMALLVQQATS........
  912-  952 (66.95/40.46)	VDVALDADNN..DGPYGwlALQEQWRR.GFSCG...PSMVHAGCGGV
---------------------------------------------------------------------------




































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 MDP12326 with Med13 domain of Kingdom Viridiplantae
Unable to open file!