<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 MDP17981

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRNLCSDDIEKVLTHSPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGVPAASTAKLSERENNQVKKELGSVEEPHLGADGQQKIESADSLPVIERTFIYPPEAIMVPMVHQAFVRSSSKRMWSQGWMGSSSWEAWPFWNFSPSSYFRNSSYLGSSRGLGVNSNFLRLRRQKNSNCNGMANSISSVSSTSNGSMHAVAAKGGDLLADADSTACHQSDMPNDVSGSKMVSKRSHSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEKGVVMDINLLLSEFGDFSDFFQEDELDFGEPPGTAESHTLVPSASDYGDVTFIDSPSTAMDIPEQRLSPVGFTSLEAFNHQTMSPIQDVASKVQEPQKDIASPAGSQALVLSSGRFDYLTRAEATLTFAPEYAAVEIPVGDMPATLFTNPYLPGSKKRGSCGFSSRVYSYDGTQSSQTELAGDKLEKPVKLSPANLSRDVGLSNLYTLVQGGKKESDNRLNNTDEQSCKGQTSRPVSGETSFSSSLPLQKKSDSMLNVGHFLLSMKTALATEIECITFQSAMCRIRHTLLSLRTKASAEFKSSSSSFLQTDVSGKLDLVPKYDVKRKENIPARLSSDVDHEMYDRSTLENVGVWRPVGAPKGAKPLESLPAKTFTGANSSLSVQRQPIVDLLSAMALLVQQSTSFVDIALDMDDGDGSFFLLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLLDPLSAEVSESSMIGLLQSDIKTALKAAFANMDGPLSVIDWCRGRSNAADSAAMGDAYSFQYSTGDIRETSSSIPIGGDAMSPPSDRGTSELEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPFASPKPVTYYALCPDIDMLTSAATDFFQQLGTIYEVCKLGTHSPQHGGGQMEHSPGKYLPSGLVLVECPDQVKTRSSHSISVSSVAEYFQALSKNWSVNSFVTSLARIIKDIKLTSSISTNQKESSNIPCTVVYVVCPFPEPSAVLHTLVESSVALGSVVLLPERERKSFLYAQVAKALNCSASVDEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAIFKDIAFTVYNKARRIPRVVSTSDMFQSPTYMSRPQSTIMHTASPGPTLWKECLVPRMSGQSLSRETEFDASMRSVSWDNSWQPGRAVLPDPSKIPDLCAQDDRKYAFEPLFILAEPGSVDYNDMTESSRPGVDASSSRVYSSISGGTDSGASPLLEGSENDSAISLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYAFGGNEVKKWPVQLRRSIPDGIPSNSNGPTIQQQDMGLIQDRNMPSSPSPLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLACQADILARPTPGEGNQSSSGVSSYLEGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKNSAQLAKEDRHSVLSVSIVDYYGGSTSTAIQEKMNRGGGGGNTSKQARNITHETSARDYEVDMHNVLEAVAAELHSLSWMTASPVYAERRSALPFHCDMVLRLRRLLHYADRHLSQPAEKGEVA
Length1711
PositionKinase
OrganismBrachypodium distachyon (Purple false brome) (Trachynia distachya)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Brachypodieae> Brachypodium.
Aromaticity0.07
Grand average of hydropathy-0.280
Instability index58.58
Isoelectric point5.93
Molecular weight185520.12
Publications
PubMed=20148030

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

>MDP17981
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.07|      50|     602|     831|     977|       1
---------------------------------------------------------------------------
  862-  920 (86.22/93.88)	RPTIAVLPSPSLL..VGYQDDwlktsanclKLWEKAPLEPFASPKPVTYYALC....PDIDMLTS
 1206- 1261 (81.86/16.09)	QPGRAVLPDPSKIpdLCAQDD.........RKYAFEPLFILAEPGSVDYNDMTessrPGVDASSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.82|      14|      26|     478|     491|       4
---------------------------------------------------------------------------
  478-  491 (22.59/14.18)	TELAGDKLEKPVKL
  507-  520 (23.23/14.80)	TLVQGGKKESDNRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     144.17|      43|    1093|     358|     453|       5
---------------------------------------------------------------------------
  311-  356 (72.26/70.98)	LSEFGDFSDFFQEDELDFGEPPGtaeSHTLVPSASDYGDVTFIDSP
  383-  425 (71.91/69.54)	MSPIQDVASKVQEPQKDIASPAG...SQALVLSSGRFDYLTRAEAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     213.94|      51|    1093|      45|      95|       6
---------------------------------------------------------------------------
   45-   95 (84.60/49.98)	LARQVYSSKL.SAPN..LPGFTQPTICQLR..GQSYYVEVALGVPAASTAKLSERE
 1093- 1138 (56.14/30.61)	....VMLSGF.SIPKlvLQIVTVETLLRLH..KPN...ELAIFKDIAFTVYNKARR
 1139- 1189 (73.20/42.22)	IPRVVSTSDMfQSPT..YMSRPQSTIMHTAspGPTLWKECL..VPRMSGQSLS.RE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     188.33|      61|      66|     963|    1027|       9
---------------------------------------------------------------------------
  963- 1027 (90.97/72.49)	VLVECPDQVKTRSSHSISVSSVAEYFQALSKNWSVNSFVtsLARIIKdiKLTSSISTNQKESSNI
 1032- 1092 (97.36/65.73)	VYVVCPFPEPSAVLHTLVESSVALGSVVLLPERERKSFL..YAQVAK..ALNCSASVDEASASNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.86|      41|    1092|     247|     293|      19
---------------------------------------------------------------------------
  247-  293 (63.52/52.08)	CH.QSDMPnDVSGSkmvskRSHSE.ITEVSSHAGKEVRENMQGTNGQGG
 1346- 1388 (63.34/37.19)	CQiMSSSP.EASNT.....RSRDViITRIGGFLELEIQEWQKAIYAFGG
---------------------------------------------------------------------------




































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 MDP17981 with Med13 domain of Kingdom Viridiplantae
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