<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 MDP15088

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMQDLVMYLQNTTPLQEIKTALGRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSASSLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKELDSVNDPHLGADGQQKLERADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFYGSSRGLGVNSNFLRLRRQRNSSSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACRQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSGEGNQSSSNTSSSASYLDGFAPVKSIGSMSASSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYGGTTVQDKMSRGSKQAARHETSAARDYETDMHNVLEAVAAELHSLSWMTASPVFMERRSALPFHCDMVLRLRRLLHYADRHLSQSTEKGDVS
Length1757
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-0.296
Instability index59.87
Isoelectric point5.71
Molecular weight191214.90
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. 
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

>MDP15088
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     473.13|     164|     996|     120|     352|       2
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  131-  336 (240.72/227.70)	GFppASTDKISESENNQIKKELDSVNDP..HLGAD.GQQKL....ERADGLPVLERTFIYPPE..AVMVPMVHqafvrfsskrmwsqdwmgsssweawpfwnfSPSSYFRNSSFYGS.SRG.LGVNSnflRLRRQRNSSSngmaSSISSVSSTSNGSEHAVAAkggDLLADADSTAC........RQSDLPLNN.DIAGSKMVSKRSRS.EITEVSSHAGKEVRENM
  422-  606 (232.41/110.75)	GF..TSMEAFNHQTMSPIQDVASKVQEPlkEIASSaGSQSLvlssSRSDFLTRAEATLTFAPEyaAVEISSCE..............................SPATLFTNPYLPGSkKRGsCGFSS...RVYSYDVTQS....SKVESVGDKSEKSDKLIPA...NLSRDAGRSNLytlvqgrkKESEKSLNNaDEQSCKGETSRPVSgETSFSSSLSLQKKSDNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     158.90|      36|      87|     900|     936|       3
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   63-   93 (33.21/15.03)	.THTPRSVG...EGLPVIVAPSGMLgrLVgCCPSD.....
  900-  936 (58.38/38.55)	GTSEEHHKGYHRVRPTIAVLPSPSL..LV.GYQDDwLKTS
  990- 1025 (67.32/39.09)	GTHSPQHSGGQIEQSPGKYLPSGLV..LV.ECPDQ.LKSS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.28|      19|      82|     718|     741|       4
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  721-  739 (33.48/24.16)	SANTFTGTSPSVQRQPIVE
 1491- 1509 (32.80/ 9.24)	SKSSFTKGQPGNKKQILVE
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     330.35|     104|     211|    1300|    1412|       6
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 1300- 1412 (172.31/116.91)	MESSRfgadaSSSRVYSSISGGTDSGASPLLEGSEND.SGTSLHCCYGWTEDwrwlVCIWTDSRGELLDSL..IFPFGGISSRQDTTV....LQSLFIQILQ.QGCQIMSSSPEASNTRSR
 1513- 1624 (158.04/88.44)	MESSR.....GSLHFVRSISLVAVSQDSSLHLACQADlPATRPTSTSGEGNQ....SSSNTSSSASYLDGFapVKSIGSMSASSYLLVpspsMRYLSPATLQlPTCLTSESPPLAHLLHSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.24|      15|     191|    1255|    1276|       7
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 1262- 1276 (29.53/26.33)	GLPDPSKIPELCAQD
 1456- 1470 (28.71/ 8.85)	GIPSNSNGPTLEQQD
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.55|      41|      66|    1033|    1078|      11
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 1033- 1078 (54.94/48.20)	SSVTeYFQALSKSWSVKSFLssLARVIKDikLTSNISTNQKESSNI
 1102- 1142 (65.61/39.85)	SSVA.LGSILSSERERKSFL..YTQVAKA..LNSSASADEASASNV
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.96|      13|     769|     670|     682|      12
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  670-  682 (23.88/14.57)	VPKYDVKRKESIP
 1442- 1454 (25.08/15.70)	VKKWPVQLRRSIP
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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 MDP15088 with Med13 domain of Kingdom Viridiplantae
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