<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 MDP14352

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHQVSWFQFLPNESDLNSLLDKSVKLEQKDAATWLVLWSHLQLQKDGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSTVVEKAQAAVSRLRVVASGIWVAPGDNEEVAVALSQSLRNCIEKALVGLSYMRFGDVFSKHHPSQSEGLFRRQPTVEFIFAATEEAIFVHVRISAKHIRPLATGDIERVSKYSANNSGYRLPVIVAPHGMRGWLTGCCPNDLVKQVYFSSGKFRTSNGFIGIPNHFSQGHGCLLRGKNCYVEVTLGCPRSENEKGLQSNSHSIRNLPKNHVVESPAVGRGDHKGSSVQTSLHEKAFIYPAEAVVVPVLQTSFARSSLKRFWLQNWIGPSLPGSSFFMHCGGDIDNIEGSWIESNGMQHGYNSSSNSNSSSIGSISSSSSDSDRRMTMEGGDLEADADSLSCRQSGLSSNDHLENDGPKLGSKRPHTGVAESFGQMGTIKNASMQDVYKSDFGSFDVGNSAITGVANEQIGSHLDWDDDDRGMGINIQALLSEFGDFDDFFENDALPFGEPPGTAESQALMFSAPDCGEVVSSPIGVMDVADHMLLPVGFSSFESFNPPPTGVLEECMSKSQEIPIDALTSLPVNHIPPSSAGEFDHLIKAEALMSFAPEYGAVETSTSEFSSSIFRSTYCPKSRKVESSNSSTNNYTYSATPPSSPCLDGSDEKSGMPVNAKAGVRMDIKKYYTHVETVREQPNRKSVTQSEGLATSEGLVPSSFSTFNSTNVVKSVQRKMAEATVGSENFLLSLKTVLATEVECLMFQATMCRVRHVLLSSCNPAPISLSRLSSSTVLSELPGDGSTMTDNISSRYEVKKKESIPVRIAGDIDGVLDGHLNAPVGVWRSVSVPKVAKPSSSPSIEVSQSLPHHSLNEERMLSYKHRQPLQELLDGMALLVQQATSFVDVALDADCSDGPYGWLALQEHWRRGFSCGPSMVHAGCGGTLASCHSLDIAGMQLVDPLSSDIHASSVISLLQSEIKTALKSAFENLDGPLSVTDWCRGRSQSGDGGIACDGSLAESTLSECKDSSSTVCLSVGEPMSPAQSSAGASSCLKVDGAKADDSGQRRLSQEIESDQLSCSRRPSLFVLPSPAILVGYQDDWLKTSASSLQLWEKAPFEPYASPKPISYCVICPDIDPLTSAAADFFQQLGTVYEICKLGTHQPQSLGNQMEIDSGKLSTSGFVMLDCPQSMKIESSNTSLVGSISDYFLSLSNGWDLTSYLKSLSKAVKSLKIGPCVSTNTKEGNSGPCMVIYVVCPFPEPIAVLQTIIESSVAVGSTILPSDRERRPLLLSQVGKALSSSAVVDEASASNVLVLSGFNVPKLVLQIVTVDAIFRVTSPALNELVILKETAFTVYNKARRISKGSSYDIQSSTLSSRSHPVMAQMTSIPAMWKDCVGPRLGGPSLPREGEIDAGLRPGTWDNSWQTTRAGGLNCDPNRNGDLFHQDEIHYMFEPLFILSEPGSLEHAAAPAVFSNLTAESSKLLSDDSSGGFMQSGSSAVSADAGSGSQLDGLEPDGFGGSYQKTLPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSHDIGSAKPRDFVITRIGNFFELECLEWQKAIYSVGGSEVKKWPLQLRRSMPDGMSASSNGATLQQQEMSLMQERTLPSSPSPMYSPHSKGSGFMKGGLGQSSARKQLIGGHTVDNSRGMLQWVQSISFVAISIDHSLHLVYQADSTSPGGTQGSNGVGAYLEGFTPVKSLGSSSASYILIPSPSMRFLPSTPLQLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRKDYRSNSREEWPSVLSVSLIDYYGGNNITQEKISRGIMKQGPRPLSSEVRDFEIEIHLILESLAAELHALSWMTVSPAYLERRTALPCHCDMVLRLRRLLHFADKELSSQPDKSQM
Length1970
PositionKinase
OrganismManihot esculenta (Cassava) (Jatropha manihot)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Malpighiales> Euphorbiaceae> Crotonoideae> Manihoteae> Manihot.
Aromaticity0.07
Grand average of hydropathy-0.212
Instability index56.06
Isoelectric point5.64
Molecular weight213223.07
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	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

>MDP14352
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     429.17|     140|     148|    1535|    1682|       1
---------------------------------------------------------------------------
 1084- 1131 (28.88/ 7.20)	DGAKADDSGQRRLSQEIESDQLSCSR..R.........PSLfvlPS....PAILVGYQDDWLK.............................................................................................................
 1535- 1672 (218.65/144.77)	..........GSQLDGLEPDGFGGSY..Q.........KTL...PS....LHCCYGWTEDWRWLVCIWTDARGELLDSHIFPfggiSSRQDTKGLQCL.FVQV.LQQGCQILQACSSHDIGSAKPRDFVITRIGNFFELECLEWQKAIYSVGGSEVKKW....PLQLrrsmP
 1673- 1817 (181.63/104.61)	DGMSASSNGA................tlQqqemslmqeRTL...PSspspMYSPHSKGSGFMKGGLGQSSARKQLIGGHTVD....NSRGMLQWVQSIsFVAIsIDHSLHLVYQADSTSPGGTQGSNGVGAYLEGFTPVKSLGSSSASYILIPSPSMRFlpstPLQL....P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     227.43|      74|     149|     241|     322|       2
---------------------------------------------------------------------------
  241-  322 (123.48/79.41)	YFSSGKFRTSNgfIG.IPNHFSQGHGCL.LRGKNCYVEV.TLGCPRSenekGLQSNSHSIRNLPK.....NH..VVESpaVGR.GDHKGSSVQ
  394-  478 (103.95/51.16)	YNSSSNSNSSS..IGsISSSSSDSDRRMtMEGGDLEADAdSLSCRQS....GLSSNDHLENDGPKlgskrPHtgVAES..FGQmGTIKNASMQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.78|      22|      34|     842|     866|       3
---------------------------------------------------------------------------
  842-  866 (32.63/27.27)	EVKKKESIPvriAGDIDGVLDGH.LN
  879-  901 (34.15/20.05)	KVAKPSSSP...SIEVSQSLPHHsLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     223.90|      60|     152|     984|    1079|       4
---------------------------------------------------------------------------
  942-  978 (19.98/49.80)	..DGPygwLA...lqehWRRGFS........CG....PSMVHagcgGTLASCH.S.....................
 1017- 1077 (104.64/59.67)	NLDGP...LSVTD....WCRGRSQSGDGGIACD....GSLAE....STLSECKDSSSTVCLsVGEPMSPAQSSAGA
 1438- 1499 (99.28/48.60)	EIDAG...LRPGT....WDNSWQTTRAGGLNCDpnrnGDLFH....Q..DEIHYMFEPLFI.LSEPGSLEHAAAPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     361.11|      89|      97|     583|     679|       5
---------------------------------------------------------------------------
  485-  580 (103.83/66.04)	FGSFDVGNSAITGVANEQIGshldwddddRGMGINIQALLSefgdfddffendaLPFGE.PPGTA.......ESQALMFSAPDCGEVVSSPIGV................MDVADHMLLP
  583-  679 (148.45/117.68)	FSSFESFNPPPTGVLEECMS.........KSQEIPIDALTS.............LPVNHiPPSSAgefdhliKAEALMSFAPEYGAVETSTSEFS.SSIFRSTYCPKSRKVESSNSSTNN
  682-  753 (108.83/69.66)	YSA....TPPSSPCLDGSDE.........KS.........G.............MPVNA.............KAGVRMDIKKYYTHVETVREQPNrKSVTQSEGLATSEGLVPSSFSTFN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.24|      20|     122|    1146|    1166|       7
---------------------------------------------------------------------------
 1146- 1166 (35.13/23.98)	EPYASPKPISYcVICPDIDPL
 1271- 1290 (41.11/22.80)	EGNSGPCMVIY.VVCPFPEPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.64|      25|     155|     172|     216|       8
---------------------------------------------------------------------------
  172-  198 (40.84/51.33)	FIFAAteEAIFVHV......RISAKH......IRPLATG
  330-  366 (33.80/ 8.50)	FIYPA..EAVVVPVlqtsfaRSSLKRfwlqnwIGPSLPG
---------------------------------------------------------------------------




































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 MDP14352 with Med13 domain of Kingdom Viridiplantae
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