<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 MDP01102

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHNVSWFQFLPSEAQLSPASDTTSSRAEQNDVATYLVLSSHLRLQKEGFLTTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSITDKAQAAVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALTGLSYMRFGDVFSKFSPQSEDYLRRGQPTVEFIFAATEEAVFVHVIVSAKNVRALSSGDAERLLRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNIGTSSGYIGLPSHVGRGSRLINDNHCYVEVTLGCCQSINDNTSQTNSTFAVNLPHNQRPEPSVGSRDHRKGQQDISSVREKKFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLSMHWAGDFEFLGSSGNKSDGFYEKNGYNSSGSSRNSSISSTSSASSGSGWRMASRTGDLDADADSLTCRQSGLTCNDDRPKSGSKRSRTGRTESFGQVDDQIGCDWDDDDDDDDDRGVGMDIKALLSEFGDFGDFFENDALPFGEPPGTAESHTLMIPPDSAEIGCSPVDMMDVSDQIVLPDGFSSFESFNPVPPIIDECLIKSQEVINSSVTSATLNQMSSSSTGEFDHLIKAEAMMTFAPEYGAVEVPMSEISSFKSPYLPKSHKVESSHSRTSNYVYGPTPPATDSDGAADKNLLGSKACIGNNDGRTLFQSRDYYTQVEGRKDQHKMLPTVISDNSSTKEGVSQLKYSNFSAVKTIQGKKSDGISAVVSTLLSSKTLLATDVGSVMFQAFMSRMRHIIISSKHSSPVSLTRLSGKLFLNQLSNEPSSLTDNISARNEIYKKEIPTRIAGGFDGGMIDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSEDSLLSYGQRQPLQELLDGIALLVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLSVTDWCKGRNHSMDGGSISEGSTAESSLREVNISGDFIDNKCVGKQAMSIASGKGEETAQSQDIYSSELLRPTLFVLPSPSILVGYQDDWLKISTNALPHWEKAPFEPYALPKNMSYTVVCPDIDPLTSAATDFFQQLGTVYETCRLGTHLPHILGNQMETDAGRLSSSGFVLLDFPQSMKIESNNTSLLGSLSDYFLSLSNGWNVTSYLKSLSKALKGLKLESCLYTNQKEGSATSPCIVVYIVCPFPDPSAVLRTIVQSSIALGSGIQPDKDRRSLLNSQVARAFASSAAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARKISRGMPNDAFQSSSLSSRSSSALTPMSSISGSWKDCVGSRMTGSTHPRDGERDGSMRTSWDSWQMTRSGGLSCDQNRNEDFYLNDESFYLFEPLFILSEPGSVERGVSPTFGGLGSESSKPVPEDGGRGSGLGVNAMEGIPSGSSSQGDASQVEGKNIPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDNGSSKPRDFVITRIGNFFELEYLEWQKAIYSAGGPDIKKWPIQLRRSAPSGIATSSSVSSLQPPDMSLIQERASSSSTLYSSHSKPSNFVKGSMGQSAGRKPIMGGQTISGTPRGLFQWVHSISFTSISLDQSLHLVLPAELVSPGGNGMSSSNYIEGFTPVKSLGSTAYSYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPSMRKDSRINMKEEWPSVLSVSLIDYYGGYDNAHDKILHGIMKQGGGGTQETRDFEVESHLILESIAAELHALSWMTVSPAYLDRRTALPFHCDMVLRLRRLLHFADKELQTTR
Length1904
PositionKinase
OrganismBrassica napus (Rape)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Brassiceae> Brassica.
Aromaticity0.08
Grand average of hydropathy-0.266
Instability index52.45
Isoelectric point5.67
Molecular weight206480.39
Publications
PubMed=25146293

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	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

>MDP01102
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     508.28|     211|     288|     829|    1115|       1
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  284-  387 (92.91/26.35)	SINDNTSQTNSTFAVNLPHNQRPEPSVGSRDHR....KGQQDISSvrekKFIYPAEaVLVPILqSAFAKFSLKRFWLQNWIgpSLAGSSLSmHW.AGDFEFLGSSGNKS............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  847- 1003 (90.40/148.50)	.............................................................................................................dgfyekngynssgssrnssisstssassgsgwrmasrtgdldadadsltcrqsgltcnddrpksgskrsrtgrtesfgqvddqigcdwdddddddddrgvgmdikallsefgdfgdffendalpfgeppgtaeshtlmippdsaeigcspvdmmdvsdqivlpdgfssfesfnpvppiidecliksqevinssvtsatlnqmsssstgefdhlikaeammtfapeygavevpmseissfkspylpkshkvesshsrtsnyvygptppatdsdgaadknllgskacignndgrtlfqsrdyytqvegrkdqhkmlptvisdnsstkegvsqlkysnfsavktiqgkksdgisavvstllssktllatdvgsvmfqafmsrmrhiiisskhsspvsltrlsgklflnqlsnepssltdnisarneiykkeiptriaggfdggmidshmsapvgvwrtvsvpKTAKpasspnieAGSSLPHssFSEDS..............LLSYGQRQPLQEllDGIALLvqqaTSFVDLALDSDCGDGPYGWL.....ALEELwRRElSCGPSAGHAgcGGTLASChsldIAgVKLVDPLSAevfPSSVI.TLLQSDIktALKSAFgQSDgplsvtdwcKGRnHSM
 1007- 1268 (324.97/206.12)	SISEGSTAESSLREVNISGDFIDNKCVGKQAMSiasgKGEETAQS....QDIYSSE.LLRPTL.FVLPSPSILVGYQDDWL..KISTNALP.HWeKAPFEPYALPKNMS.................................................................................................................................................................................................................................................................................................................................................................................................................................................ytvvcpdidpltsaatdffqqlgtvyETCR........LGTHLPH..ILGNQmetdagrlsssgfvLLDFPQSMKIES..NNTSLL....GSLSDYFLSLSNGWNVTSYLkslskALKGL.KLE.SCLYTNQKE..GSATSPC....IV.VYIVCPFPD...PSAVLrTIVQSSI..ALGSGI.QPD.........KDR.RSL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     211.67|      50|      80|     634|     713|       2
---------------------------------------------------------------------------
  634-  683 (89.85/43.18)	SHKVESSHSRTSNYVYGPTPPATDSDG..AADKNLLGSKACIGNNDGRTLFQ
  722-  761 (45.42/63.48)	............NFSAVKTIQGKKSDGisAVVSTLLSSKTLLATDVGSVMFQ
 1642- 1684 (76.39/33.65)	SSTLYSSHSKPSNFVKG.....SMGQS..AGRKPIMGGQTISGTPRG..LFQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.64|      35|      80|    1356|    1395|       3
---------------------------------------------------------------------------
  402-  434 (55.13/25.00)	SRNSSISSTSSA..SSGS.....GWRMASRTGDLDADADS
  438-  468 (38.34/16.60)	.R.QSGLTCNDDrpKSGSKR....SR.TGRTESF.GQVD.
 1356- 1393 (60.17/41.70)	SRSSSALTPMSS..ISGSWKdcvGSRMTGSTHPRDGERDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.27|      18|      60|     763|     784|       4
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  763-  784 (26.96/29.29)	FMSRMrhiiISSKHSSPVSLTR
  824-  841 (34.31/24.27)	FDGGM....IDSHMSAPVGVWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.08|      12|      15|    1470|    1481|       7
---------------------------------------------------------------------------
 1452- 1463 (19.76/ 9.54)	GLGSESSKPVPE
 1470- 1481 (22.31/11.89)	GLGVNAMEGIPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.40|      28|    1063|     229|     257|       8
---------------------------------------------------------------------------
  229-  257 (47.33/35.90)	LTGFCPNDLVKQVyFSSGNI..GTSSGYIGL
 1294- 1323 (43.07/26.68)	LSGFSVPKLVLQV.VSVDSIfrITSPSFNEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.28|      30|    1238|     198|     227|       9
---------------------------------------------------------------------------
  198-  227 (53.62/35.01)	SGDAERLLRSSLKNSSYRL..PV.IVSPHG..MRG
 1411- 1445 (42.66/26.12)	SCDQNRNEDFYLNDESFYLfePLfILSEPGsvERG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.66|      34|      59|      50|      83|      10
---------------------------------------------------------------------------
   50-   83 (63.94/41.04)	SHLRLQKEGFLTTWTNSFVGPWDPSQGLYNPDEK
  106-  139 (57.71/36.23)	SKLRVVASGIWVAPGDSEEISVAFSQSLRNCIER
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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 MDP01102 with Med13 domain of Kingdom Viridiplantae
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