<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 MDP11475

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSWFQFLPVESELSSLPDKSIKADQKDAATLQVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHVSVVESAQSVVAKLRVVASGFWLAPGDSEEVAAALSQALRNRIERALLGLSYIRFGDVFSKYHPPQIEESFRRAQPTVEFIFAATEESLFVHAIISSKHIRGLSTGDIEKVLEHSSNDSSYLLPVIVSPHGMRGRLTGCCPNDLVKQVYFSSAKVRTSNGFIGLPYHKNQGSGCQLRGQNCYVKVTIGCSKSGSDKILNSNSNYTRNLPKHQSTEASTAGRGDQKGSLDLLSVHEKTFIYPSEAVLVPVLQTSFARSSMRSDGNIDSMERSWVEFSGILTQHGYNSSSNSNNSSISSISSTSSDSVTTGARDLEADADSSCRQSGLSSNDQMEIDCLKLGSKRPRIGITESYAITGIGNDQIGSNWDWDDDDRGIVMDFQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFAAPDCGDVGNSPVGVMDIPDPMVMPVGLPSFDSFSAPPPVAVEECLSKSQEVTSSAVISGPSNHTPASFTGEFDHIMKAEALMTFSAEYGAVETPASDSSSIFRNPYLPKSRKVESSNSSPNIYIYGATPPSSPFLDGLDEKTGMPMSLKAHSAGNDSSSILQLKKYYTHVETRKDRCDRRLLTNNDGGGTNELSGTSQFANFNSVNTLKSADRKMTQGTFGGEDIHLSMKTLFATEVECAMFQASMLRMRHIPLSRHTGSSVLNQLPGDPSIMTDNVSSRYEVKKKESIPVRIAGDIDGGIIDGHLNAPVGVWRSVGVPKVLKPATSPSIEASSSLTHNSFNEESILSYGQRKPLQELLDGIVLLVQQATSFVDLALDADCGDGPYSWLALQEHWRRGFCCGPSMVHAGCGGALASCHSLDIAGVELVDPLSANIQASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCKGRVQSVDVGPSADGSSAESNISELTGAMDGGKVDESEQQQCTRLRPTLFVLPSPAILVGYQDDWLKTSSNSLQHWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQSLGNQMEIDSGKWSASGFVLLDCPQSMKIESNNASLLGSISDYFLSLSNGWDLACYLKSLSKALKALKLGQFLSTNQKEGISGPCMVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRERRSVLHSQVGKALSSSAASDEASISNIPVVSGFSVPKLVLQIVTVDAIFRVTSPPFNELVVLKETAFTIYNKARRISRGSVNDVLSSSFSNRSHSVLTPMTSIPGMWNSRISGSSLPREGEIDSSLRAGAWDNSWQATRTGGLSCDPNRNGDIYYQDEVRYMFEPLFILAESGSVEYGVSPTGFGNLASETSKTVSDESSGGFMQNANSTGSIDPGSGSQFDMSEPDALSSGSHKTPSLHCCYGWTEDWRWLVCTWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQTCASDTGIIKPRDFVITRIGNFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPASTNGTSLQQQEMSLIQERTLPSSPSPLYSPHTKTGFMKGGLGQPAARKQLMSGHTIVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADGISPGTHGVGGMGQSSYIEGFTPVKSLGSASASYMLIPSPSMRFLPPTPLQLPICLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRRDYRNYTKEEWPSILSVSLIDYYGGNNVSQMRGIGKQAGSSLSSEARDFEIDNHLILESVAAELHALSWMTISPGYLERRSALPFHCDMILRLRRLLHFAEKELSRQPDKPQV
Length1862
PositionKinase
OrganismCorchorus capsularis (Jute)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Grewioideae> Apeibeae> Corchorus.
Aromaticity0.08
Grand average of hydropathy-0.220
Instability index51.03
Isoelectric point5.52
Molecular weight201742.86
Publications









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

>MDP11475
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.18|      33|      36|     583|     617|       1
---------------------------------------------------------------------------
  540-  601 (35.88/20.68)	LSKSQEVTSSAviSGPSNhtpasftgefdhimkaealmtfsaeY..GAveTPASDS..SSIFRNPY
  602-  638 (49.30/24.25)	LPKSRKVESSN..SSPNI.........................YiyGA..TPPSSPflDGLDEKTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.97|      33|      36|     902|     937|       2
---------------------------------------------------------------------------
  902-  935 (52.63/38.01)	HAGCGGALASCH.SLDiAGVELVDPLSANIQASSV
  940-  973 (53.34/28.13)	HSDIKSALKSAFgSLD.GPLSVTDWCKGRVQSVDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.51|      33|      36|     649|     683|       3
---------------------------------------------------------------------------
  649-  683 (48.81/47.76)	GNDSSSILQLKKyYTHVETRKDrCDRRLLTNNDGG
  685-  717 (56.70/42.87)	TNELSGTSQFAN.FNSVNTLKS.ADRKMTQGTFGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     363.08|     155|     600|     363|     539|       4
---------------------------------------------------------------------------
  363-  451 (77.66/53.71)	.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GYNSSSNSNNSSISSIsstssdsvtTGARDlEADADSSCRQsglsSNDQMEIDCLKLGSKRPRIGITESYAITGIGNDQIGSNWDWDDD
  452-  539 (103.50/58.71)	DRGIVM.DFQSLLSEFGDF....GDFFENDVLPFGEPPGTAESSAImfaapDCGDVGNSPVGVMDIPDPMVMP......VGLPS..FDSFSAPPPVAveeC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  974- 1048 (93.87/40.68)	.....................................................................................................lsksqevtssavisgpsnhtpasftgefdhimkaealmtfsaeygavetpasdsssifrnpylpksrkvessnsspniyiygatppsspfldgldektgmpmslkahsagndsssilqlkkyythvetrkdrcdrrlltnndgggtnelsgtsqfanfnsvntlksadrkmtqgtfggedihlsmktlfatevecamfqasmlrmrhiplsrhtgssvlnqlpgdpsimtdnvssryevkkkesipvriagdidggiidghlnapvgvwrsvgvpkvlkpatspsieassslthnsfneesilsygqrkplqelldgivllvqqatsfvdlaldadcgdgpyswlalqehwrrgfccgpsmvhagcggalaschsldiagvelvdplsaniqassvisllhsdiksalksafgsldgplsvtdwckgrvqsvdvGPSADGSSAESNISEL.........TGAMD.GGKVDESEQQ....QCTRLRPTLFVLPSPAILVGYQDDWLKTSSNSLQHWEKAPLEPY
 1055- 1147 (88.04/36.27)	NYSVICpDIDPLTSAAADFfqqlGTVYETCKLGTHSPQSLGNQMEI.....DSGKWSASGFVLLDCPQSMKIEsnnaslLGSISdyFLSLSNGWDLA...C...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     259.12|      79|     600|     810|     896|       5
---------------------------------------------------------------------------
  810-  896 (120.64/95.22)	SVGvpkVLKPATSP.SIEASSSlTHNSFNEESILSYGQRK.PLQELLDGivlLVQQATSFVDLALDA.....DCGDGPYSWLALQEHwRRGFCC
 1413- 1498 (138.48/83.84)	SGG...FMQNANSTgSIDPGSG.SQFDMSEPDALSSGSHKtPSLHCCYG...WTEDWRWLVCTWTDArgellDCNIFPFGGISSRQD.TKGLQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.83|      33|      36|     273|     308|       6
---------------------------------------------------------------------------
  232-  267 (53.55/25.58)	SAKVRTSNGFIG..LPYHKNQGSGCQLRGQNcyvKVTI
  274-  308 (51.27/29.31)	SDKILNSNSNYTrnLPKHQSTEASTAGRGDQ...KGSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     404.69|     134|     505|    1171|    1330|       7
---------------------------------------------------------------------------
 1171- 1330 (194.12/186.24)	EGIS.....GPCMVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRerrsVLHSQvGkalsssaasdeasiSNIPVVSGFSVPKLV...............lQIVTVDAIFRVTSPPFNELV.VLKETAFTIYNKARRISRGsvNDVLSSSFSNRSHSvLTPMTSIPGMWNSRisgSSLP
 1678- 1833 (210.57/140.26)	EGFTpvkslGSASASYMLIPSPSMRFLPPTPLQLPICLTAESPPLAH....LLHSK.G..............SAIPLSTGFVVSKAVpsmrrdyrnytkeewpSILSVSLIDYYGGNNVSQMRgIGKQAGSSLSSEARDFEID..NHLILESVAAELHA.LSWMTISPGYLERR...SALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.38|      29|      29|     158|     186|       8
---------------------------------------------------------------------------
  158-  186 (48.38/36.45)	VEFIFA.ATEESLFVHAIISSKH.IRGLSTG
  188-  218 (41.00/29.51)	IEKVLEhSSNDSSYLLPVIVSPHgMRGRLTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     189.30|      58|     705|      19|      79|      10
---------------------------------------------------------------------------
   19-   79 (97.06/66.36)	KSIKADQKDAATLQvlSSHLQLqKEGFLSTWTNSFV...GPWDPSQGLHNPDEK..IKLWLFIPGR
  725-  787 (92.24/53.72)	KTLFATEVECAMFQ..ASMLRM.RHIPLSRHTGSSVlnqLPGDPSIMTDNVSSRyeVKKKESIPVR
---------------------------------------------------------------------------




































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 MDP11475 with Med13 domain of Kingdom Viridiplantae
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