<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 MDP12248

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFSPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTKHHPFSQNEELFRKGQPVVEFIFSATEEAIFVHVIISAKLIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFSSDAKVNSTDGSWLDANIMRSNRQYNSSSNSNSSSVSSVSTSSSDSDYKTSGAGDLEADADSLMCRPSGLSSVDQSRNDNLKTGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQIGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMYPAADSADVGSSPCPSMMDVKDQMLLPVGFPSFDSFNQPPPPASLDDSLSKHQEVIKSTAVAYQVNNSSAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKSHLIFRNPYLPKSREVDTSNSSSDSYVYSATPPLSPYFDACEEKSGVTVNLKTGSGRRDTSSIIQSKRYYTHIESGKEKNDGKLSGSDHSCATREAQVEQSPFYGFNSTNSVKSIHNKTEKANEALLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNMSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAQVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGVALLVQQATSLVDVALDADNNDGPYGWLTLQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFALTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQISRGGSLGCDPNRIGDFSFQDEVRYLFEPLYILAEPGSLDRGLSFPMSGGGDTGPNTQSETSEPDGFGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPEAANAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGTSLQQQEIGLIQERALPSSPSPLYSPHSKVSSFMKGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMFQADIVSHGTSQSSGVLSQPGYLEGYTPVKSLGSTSNSYILIPSPNMRFLPPVGLQLHTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARSISKEEWPSVLSVSLVDYYGGSNIIQEKFFKGVGKVGGRGTSSETRDVEIETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1930
PositionKinase
OrganismNicotiana tabacum (Common tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.08
Grand average of hydropathy-0.227
Instability index54.41
Isoelectric point5.47
Molecular weight209351.58
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

>MDP12248
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.01|      47|      78|     853|     927|       1
---------------------------------------------------------------------------
  882-  935 (74.13/75.65)	EESMLAYGLRQPLQELLDgVALLVQQATSLVDVALDADNNDGP.....YGWltlqeqWR
 1472- 1526 (80.88/30.91)	EPGSLDRGLSFPMSGGGD.TGPNTQSETSEPDGFGSAHQKSLPslhccYGW...tedWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.29|      20|      78|    1223|    1246|       2
---------------------------------------------------------------------------
  110-  134 (25.08/ 8.17)	LASGlWvapgDSEEVAAALSQALRN
 1223- 1242 (36.21/27.38)	LSNG.W....DLESYLKSLSKVLRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     163.52|      49|      80|    1643|    1691|       4
---------------------------------------------------------------------------
 1643- 1691 (87.41/49.20)	QQEI...GLIQERALPSSPSPL..YSPHSKVSSFMKGGMGQPSTRKQLIGGQGM
 1721- 1774 (76.10/41.74)	QADIvshGTSQSSGVLSQPGYLegYTPVKSLGSTSNSYILIPSPNMRFLPPVGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.62|      33|      39|    1007|    1045|       6
---------------------------------------------------------------------------
 1010- 1045 (55.87/38.52)	GR....SQSNDGGIS.GDGFSAEstaSASECRDSSST.ISFS
 1047- 1085 (43.75/16.27)	GEpispSQSSAGGSSlKDGIRVD...EASERRLSQDTcLSES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.54|      35|      39|     492|     527|       7
---------------------------------------------------------------------------
  492-  527 (60.80/34.18)	SEFGDFGDFFENDVLPFGEPPGTAESQAlMYPAA..DS
  533-  569 (63.75/32.33)	SPCPSMMDVKDQMLLPVGFPSFDSFNQP.PPPASldDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     162.14|      52|     825|     953|    1007|      11
---------------------------------------------------------------------------
  953- 1007 (78.26/61.92)	LASC.........HSLDIAGVELidPLSADVQASFALTLLQNDIKTAMKSAFGTMEGpLSVVDW
 1776- 1836 (83.88/54.55)	LHTCltaespplaHLLHSKGCAI..PLSTGFVVSKAVPTMRRDARSISKEEWPSVLS.VSLVDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     216.55|      65|    1108|     278|     348|      13
---------------------------------------------------------------------------
  278-  348 (109.38/82.54)	VSLGCTTPGNNNIKESsrmliYPPEAILVPVVQTACARSSLKR.FWlQNW.I..GPSLSFTSSFMHCFDFSSDAK
 1393- 1461 (107.17/66.41)	VLMQMTSPVPGMWKDC.....VGPRSIGTSLQREAELDASLRSgSW.DNWqIsrGGSLGCDPNRIGDFSFQDEVR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.64|      25|     587|     774|     799|      15
---------------------------------------------------------------------------
  774-  799 (41.85/28.76)	AF..MCKIRHTLLSSSSYLpVGASRMSG
 1362- 1388 (40.79/22.61)	AFtvYNKARRISRGSSSDM.VQSSSMSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.33|      48|     951|     146|     203|      17
---------------------------------------------------------------------------
  146-  203 (64.49/80.48)	VRYGDVFTKHHPFSQneELFRKGqPvvefiFS..ATEEAIFVHVIISAklIRALSSGDID
 1107- 1156 (84.84/65.64)	VGYQDDWLKTSPSSL..QLWEKA.P.....FEpyAMPKHMSYYVVCPD..INALTTAATD
---------------------------------------------------------------------------




































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 MDP12248 with Med13 domain of Kingdom Viridiplantae
Unable to open file!