<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 MDP17983

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLKLPLGFQLPQLPNYLNEKTIRTFIYPPEAIMVPMVHQAFVRSSSKRMWSQGWMGSSSWEAWPFWNFSPSSYFRNSSYLGSSRGLGVNSNFLRLRRQKNSNCNGMANSISSVSSTSNGSMHAVAAKGGDLLADADSTACHQSDMPNDVSGSKMVSKRSHSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEKGVVMDINLLLSEFGDFSDFFQEDELDFGEPPGTAESHTLVPSASDYGDVTFIDSPSTAMDIPEQRLSPVGFTSLEAFNHQTMSPIQDVASKVQEPQKDIASPAGSQALVLSSGRFDYLTRAEATLTFAPEYAAVEIPVGDMPATLFTNPYLPGSKKRGSCGFSSRVYSYDGTQSSQTELAGDKLEKPVKLSPANLSRDVGLSNLYTLVQGGKKESDNRLNNTDEQSCKGQTSRPVSGETSFSSSLPLQKKSDSMLNVGHFLLSMKTALATEIECITFQSAMCRIRHTLLSLRTKASAEFKSSSSSFLQTDVSGKLDLVPKYDVKRKENIPARLSSDVDHEMYDRSTLENVGVWRPVGAPKGAKPLESLPAKTFTGANSSLSVQRQPIVDLLSAMALLVQQSTSFVDIALDMDDGDGSFFLLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLLDPLSAEVSESSMIGLLQSDIKTALKAAFANMDGPLSVIDWCRGRSNAADSAAMGDAYSFQYSTGDIRETSSSIPIGGDAMSPPSDRGTSELEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPFASPKPVTYYALCPDIDMLTSAATDFFQQLGTIYEVCKLGTHSPQHGGGQMEHSPGKYLPSGLVLVECPDQVKTRSSHSISVSSVAEYFQALSKNWSVNSFVTSLARIIKDIKLTSSISTNQKESSNIPCTVVYVVCPFPEPSAVLHTLVESSVALGSVVLLPERERKSFLYAQVAKALNCSASVDEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAIFKDIAFTVYNKARRIPRVVSTSDMFQSPTYMSRPQSTIMHTASPGPTLWKECLVPRMSGQSLSRETEFDASMRSVSWDNSWQPGRAVLPDPSKIPDLCAQDDRKYAFEPLFILAEPGSVDYNDMTESSRPGVDASSSRVYSSISGGTDSGASPLLEGSENDSAISLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYAFGGNEVKKWPVQLRRSIPDGIPSNSNGPTIQQQDMGLIQDRNMPSSPSPLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLACQADILARPTPGEGNQSSSGVSSYLEGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKNSAQLAKEDRHSVLSVSIVDYYGGSTSTAIQEKMNRGGGGGNTSKQARNITHETSARDYEVDMHNVLEAVAAELHSLSWMTASPVYAERRSALPFHCDMVLRLRRLLHYADRHLSQPAEKGEVA
Length1604
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-0.282
Instability index58.70
Isoelectric point6.02
Molecular weight174359.73
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

>MDP17983
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.07|      50|     602|     724|     870|       1
---------------------------------------------------------------------------
  755-  813 (86.22/78.72)	RPTIAVLPSPSLL..VGYQDDwlktsanclKLWEKAPLEPFASPKPVTYYALC....PDIDMLTS
 1099- 1154 (81.86/26.17)	QPGRAVLPDPSKIpdLCAQDD.........RKYAFEPLFILAEPGSVDYNDMTessrPGVDASSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     254.78|      76|     607|     212|     293|       3
---------------------------------------------------------------------------
  212-  293 (125.50/78.69)	DFFQEdeldFG..........EPPGTAESHTLVPSASDYGDVTFIDSPSTAMDIPEQ...RLS..PVGFTSL.EAFnhQTMSPIQDVASKVQEPQ...KDI
  295-  333 (33.26/10.65)	.....................SPAG...SQALVLSSGRFDYLTRAEATLTF..APEY...AAVeiPVG.................................
  817-  904 (96.02/48.67)	DFFQQ....LGtiyevcklgtHSPQHGGGQ.MEHSPGKY.....LPSGLVLVECPDQvktRSS.hSISVSSVaEYF..QALSKNWSVNSFVTSLAriiKDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.79|      18|     189|     395|     417|       5
---------------------------------------------------------------------------
  371-  388 (29.06/20.60)	TELAGDKLEKPVKLSPAN
  400-  417 (29.73/13.26)	TLVQGGKKESDNRLNNTD
---------------------------------------------------------------------------




































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 MDP17983 with Med13 domain of Kingdom Viridiplantae
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