<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 MDP14923

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMQDLVMYLQNTTPLQEIKTALGSRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKEFDSGKDPHLGDDGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMSSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPSIAMDIPEQRLSPVGFTSMEAFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKETIPARLSSDVDHDMYDRSLLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDIDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTSGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSADCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIDQSPGKYLPSGLVLVDCPDQLKTSGSHSVSISSVTEYFQALSKSWSVKSFISSLARIIKDIKLTLNISTNQKESSNMPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSVPKFVLQIVTVETLLRLHKPNELAAFKDIAFTIYNKARRIPRFVSTSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLVFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRMNAAQLTKEDRHSVLSVSIVDYYGGGTATVQEKMSRGVGGSTTSKQARNISHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYTERRSALPFHCDMVLRLRRLLHYADRHLSQLTVKGEM
Length1762
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.
Aromaticity0.07
Grand average of hydropathy-0.283
Instability index59.48
Isoelectric point5.59
Molecular weight191692.59
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	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

>MDP14923
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     748.38|     247|     275|     980|    1253|       1
---------------------------------------------------------------------------
  980- 1253 (369.84/314.67)	QLGTiyevcKLGTHSPQHSGGQIDQSPGKYLPSGLVL......VDCPDQLKTSgSHSVSISSVTEYFQALSKSWSVKSFIssLARIIKDIKLTLNISTNQKES.SNMPC........TVVYVVCPFPEPSAVLQTLVESSVALgSILSsererksflytQVAKALNSSASADEASASNVVM..LSGF...SVPKFVLQIVTV........ETLLRLHKPNELAAFKDiAFTIYNKARRIprfVSTSDMFQSPTYMSRPQSTMMHT.ASPGPtlwKECLVPRMSGQTLSRETEF...DASMRSVSWD
 1257- 1535 (378.54/253.40)	QPGR.....AAGLPDPSKIPELCAQDDRKYAFEPLFIlaepgaVDYNDTMESS.RFGVDASSSRAYSSISGGSDSGASPL..LEGSENDSGTSLHCCYGWTEDwRWLVCiwtdsrgeLLDSLVFPFGGISSRQDTKVLQSLFI.QILQ...........QGCQIMSSSPEASNTRSRDVIItrIGGFlelEIQEWQKAIYSFggnevkkwPVQLRRSIPDGIPSNSN.GPTLQQQDMGL...IQDRNMPSSPSTLYSPHSKSSFTkGQPGN...KKQILAEQTGMDSSRGSLHlvrSISLVAVSQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     127.60|      33|      34|     541|     573|       2
---------------------------------------------------------------------------
  494-  537 (29.43/13.68)	...TPATLFTNpylpgskkrgsC.GFSSrvySYDVTQSSKVESAGDKS
  541-  573 (53.51/31.59)	DKLTPANLSRD...........V.GRSS...LYTLVQGRKNESEKSLN
  577-  609 (44.67/25.01)	EQSCKGETSRP...........VsGETS...FSSSLTIQK.KSDSMLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.55|      22|     436|       1|      24|       4
---------------------------------------------------------------------------
    1-   24 (34.20/31.60)	MQDLVMYLQNttPLQEIKTALGSR
  438-  459 (37.35/26.83)	IQDVASKVQE..PLKEIASPAGSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.10|      22|      54|     194|     215|       8
---------------------------------------------------------------------------
  194-  215 (42.05/26.53)	VHQAFVRFSSKRMWSQDWMSSS
  245-  266 (38.05/23.25)	VNSNFLRLRRQRNNNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.65|      10|     437|     399|     418|      11
---------------------------------------------------------------------------
  389-  398 (15.68/ 7.38)	SHALVTPASE
  409-  418 (15.96/ 6.81)	SIAMDIPEQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.93|      26|     663|     921|     949|      18
---------------------------------------------------------------------------
  921-  949 (39.57/35.13)	PSPSLlvGYQDDWLKTSADCLKLwEKAPL
 1587- 1612 (49.37/30.30)	PSPSM..RYLSPATLQLPTCLTS.ESPPL
---------------------------------------------------------------------------




































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 MDP14923 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQT
2) KISESENNQIKKEFDSGKDPHLGDDGQQKLE
3) RSEITEVSSHAGNEVRENMQGTNGQGGCSW
1454
140
319
1512
170
348










Molecular Recognition Features






MoRF SequenceStartStop




NANANA