<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 MDP14907

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPIEPDYSATSDRSSKAEQKDALNNTVLSAYLRLQSEGLLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLSGRHSSVPEMTQPAVAKLRVVSSDLWVAPGNSEEVAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKEFDSGKDPHLGDDGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMSSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPSIAMDIPEQRLSPVGFTSMEAFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKETIPARLSSDVDHDMYDRSLLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDIDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTSGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSADCLKLWEKAPLEPYASAKPVVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIDQSPGKYLPSGLVLVDCPDQLKTSGSHSVSISSVTEYFQALSKSWSVKSFISSLARIIKDIKLTLNISTNQKESSNMPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSVPKFVLQIVTVETLLRLHKPNELAAFKDIAFTIYNKARRIPRFVSTSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLVFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRMNAAQLTKEDRHSVLSVSIVDYYGGGTATVQEKMSRGVGGSTTSKQARNISHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYTERRSALPFHCDMVLRLRRLLHYADRHLSQLTVKGEM
Length1906
PositionKinase
OrganismHordeum vulgare subsp. vulgare (Domesticated barley)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Hordeinae> Hordeum.
Aromaticity0.08
Grand average of hydropathy-0.297
Instability index58.16
Isoelectric point5.67
Molecular weight207920.53
Publications
PubMed=23075845

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. 
ECO:0000256	RuleBase:RU364134
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP14907
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     426.14|     115|     283|    1059|    1183|       1
---------------------------------------------------------------------------
   77-  126 (49.36/16.76)	...................HNPDEKIKLW......LFLSGRHSSVPEMTQPAVAKLRVVSSDLWVAPG.........NSEEVAA..................................................
 1059- 1183 (182.87/106.71)	TIAVLPSPSLLVGYQDDWLKTSADCLKLWeKAPLEPYASAKPVVTYYALCPDIDMLTSAATDFFMQLG.........TIYEVCKLGTHSPQHSGGQIDQSPGKylpsglvlVDCPDQLKTSgSHSVSISSVTEY
 1340- 1460 (193.91/94.19)	TSDMFQSPTYMSRPQSTMMHTASPGPTLW.KECLVPRMSGQTLSRETEF..DASM.RSVSWDNSWQPGraaglpdpsKIPELCAQDDRKYAFEPLFILAEPGA........VDYNDTMESS.RFGVDASSSRAY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     248.60|      75|     286|     355|     463|       2
---------------------------------------------------------------------------
  355-  439 (115.12/104.52)	MSSSSWEAWPFWNFSPSSYFRNSSFFGSSrgLGVNSNFLRLRRQRNNNSNGMASSISSVSStsnGSEHavaakGGDLLADADSTA
  480-  554 (133.47/71.78)	MQGTNGQGGCSWGWGEEGVVMDINILLSE..FGDFSDFFQEDELDFGEPPGTAESHALVTP...ASEF.....GDMPFIDSPSIA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     225.05|      77|     996|     642|     755|       3
---------------------------------------------------------------------------
  642-  730 (116.28/117.81)	FtnpylpgskKRGSCGFSSRVYSYDVTQSSKVESA...GDKSEKSDK..LT...........PANLSRDVGRSslyTLVQGRKNESEKSLNN..ADEQSCKG.ETSRP
  773-  833 (36.66/ 7.69)	F.........QAAMCRIRHTLVSLRTKASAELKSAlssAMQTESSSNsgLVpkyemkrketiPARLSSDV......................................
 1003- 1058 (72.11/26.27)	................................ESA...AMGDAYSFH..YT...........SGDI.RDTSNS...IPIGGDAMSPPQSSNDrgTSEEHHKGyHRVRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     251.92|      83|     626|     211|     305|       8
---------------------------------------------------------------------------
  211-  305 (127.96/112.80)	RSVGEGLPV...IVAPSGM..LGRL.....VGCCPSdLARQVYSSKLSAPNLpgFTQPTicqlrgqSYYVEVALGFPPASTDKISESENNQIKKEFDSgkDP...HLG
  840-  935 (123.96/78.13)	RSLLENVGVwrsVVVPKGAkpLDSLsaktfTGTSPS.VQRQPIVELLSAMAL..LVQQS.......TSFVDIALDIDDGDGSFFWLSLDEQRRRGFSC..DPsmvHAG
---------------------------------------------------------------------------




































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 MDP14907 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQT
2) KISESENNQIKKEFDSGKDPHLGDDGQQKLE
3) RSEITEVSSHAGNEVRENMQGTNGQGGCSW
1598
283
462
1656
313
491










Molecular Recognition Features






MoRF SequenceStartStop




NANANA