<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 MDP00650

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSDSSTSIEASYEGGLHHVSWFQFLPNESDLNALPDKRLKDAATFLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVETAQAAVSRLRVVASGLWVAPGDSEEVAAALSQALRNCIERALNGLSYLRFGDVFSKYQPSQSEESFRKGHPTIEFIFAATEEAIFIHALVSAKHIHSLSGGDMEKGFKHSSSSSSSLRLPVIVSPHGMRGRLTGYCPTDLVKQVYFRTSNGCVGLPHVSQGSGCQLNGQNCYVEVTMGCPRSGSDKASHINSNSLRNLHKHNVSESPSVGGGDPKGSPDNMSAYEKTFIYPAEAVLVPVLQTSFSRSSLRSFGNMDSLEGSWIETNGIHAQRGYNSSSNSNNSSISSISGSSSDSDYQMNARTGDLEADADSLTCRQSGLSSNDQLENEGPKLGSKRPRTGMIESFGQMGTGTNASTDFGSVENTSAITGVANDQIGPHWDWDDDDDRGMGMDIQALLSEFGDFGDFFENENLPFGENRQTLWDGSVRRCVMWCFIIIVAQTHHYLSWALGACGRTPPGTAESQSFMFSAPDCGDVGSSPVVAMDVSDQMLMPNFSSFESFNPLPTMAVEECMGKSQEVTNNTLTSGQANQSQASSTGEFDHLMKAEALMTFAPEYGAVETPTSELSSSIFRSPYLPKSYRVESSNSSSNNYVYGATPPGSPCFDGSDEKNGTPVSKACSGKHDSSALLHSKKYYSHVESSKEQNDRKSVTHKDSNAKSDGLVLSPFSNLSSTNAIKSLPRKMTEGTLGVEHIFLSKKTVLATEVECLMFQASMCRIRHVLLYSSNPSPISLSRFTGSTVLNQLPGDLSSMTESTSGRYELKKKESIPVRIAGDFDGGLLDGHLNAPVGVWRSVGVAKVSKPTNSSSIEVSPSMPHGSFTEEGMISYGQRQPLQELLDGLPLLVQQATSFVDVALDADCGDGPYGWLALQEHWRQEFSCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSADIHASSVISLLQSEIRTALKSAFGSLDGPLSVTDWCKGRGQSVDAAALGDGSTESISECRDSSSTITVGEALSPSQSSGGGSSSLKVAMDGTKLDETGQRRLNQDIGSSESDHQLCARLKPTLFVLPSPAILVGYQDDWLKTSATSLQFWEKAPLEPYALPKPITYNVICPDIDPLTSAAADFFQQLGAVYETCKLGTHSPQNLGNQMEIDSGKSPSSGFVLLDCPQSMKIESNNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKTMKLGPCSSTQQKEGNSGPCTVIYVVCPFPEPLAILQTVIESSASLGSVAISSDRERALLHSQVGKALSCPAAVDETSISNVLAISGFSIPKLVLQILTVDEIFRVTSPAINELVLLKETAFTVYNKARRISRGSSGDVVHSSSLSSRSHSVMNQMASIPGMWKDCVGSRMTGPSLSREGEIDASLRPGTWDNSWQATRSGGLNCDPNRNGDFLIQDEIRFMFEPLFVLAEPGSLDHGVSSTFNGNSTSDDSTGGFMMSGSTAGSADTGSSSQLDRSEQDGFGSGHHKSVPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQILQQGCQILQTCCSPDSGVAKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEMKQWPLQLRRSVPDGMPSSTNGASLQQQQEISLIQERALPSSPSPLYSPHSKASGFMKGGLGQPVGRKQLIGGHTMVDNSRGLLQWVQSISFVAISIDHSLHLVHQADSPSSGGTQGGNGVGPSGYLEGFTPVKSLGATPASYILIPSPSMRFLPPAPLQLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKSVPSMRKDHKNKLKDEWPSVLSVNLIDYYGGNNISQDKVTRVIIKQGGRTASSEPKDFEVETHLILESIASELHALSWMTASPAYLNRRTALPFHCDMVLRLRRLLHFADRELSQQADNPQS
Length1986
PositionKinase
OrganismCitrus sinensis (Sweet orange) (Citrus aurantium var. sinensis)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Sapindales> Rutaceae> Aurantioideae> Citrus.
Aromaticity0.07
Grand average of hydropathy-0.287
Instability index51.83
Isoelectric point5.51
Molecular weight213993.18
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

>MDP00650
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     354.88|      95|     239|     560|     666|       1
---------------------------------------------------------------------------
  349-  402 (46.75/18.30)	..........................SFGNMDSLEGS...WIETNGihaQRGYNSSSNSNNSSISSISgS.....SSDSD......YQMNARTG...................
  569-  666 (153.86/110.47)	PDCGDVGSSPVVAMdVSDQMLMPNFSSFESFNPLPTMAVEECMGKS...QEVTNNTLTSGQANQSQAS.S.....TGEFD......HLMKAEALMTFAPEYGAVETPTSelSS
  839-  904 (62.87/29.20)	..............................LNQLP........GDL...SSMTES..TSGRYELKKKE.SipvriAGDFDgglldgHL.NAPVGVWRSVGVAKVSKPTN..SS
 1006- 1127 (91.40/44.74)	PLSADIHASSVISL.LQSEIRTALKSAFGSLDG.PLSVTDWCKGRG...QSVDAAALGDGQRRLNQDI.G.....SSESD......HQLCAR.....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     169.00|      37|     607|     958|    1001|       2
---------------------------------------------------------------------------
  961-  997 (73.09/36.80)	PYGWLALQEHWRQEFSC.GPSMVHAGCGGTLASCHSLD
 1573- 1597 (39.33/14.71)	.YGW...TEDWRW.LVC.....IWTDARGELLDSH...
 1600- 1635 (56.59/22.66)	PFGGISSRQD.TKGLQClFVQILQQGC.QILQTCCSPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.16|      15|     123|    1149|    1185|       3
---------------------------------------------------------------------------
 1170- 1185 (26.84/49.26)	PKPITYnVICPDIDPL
 1295- 1309 (32.32/ 7.67)	PCTVIY.VVCPFPEPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.46|      33|     236|     667|     704|       4
---------------------------------------------------------------------------
  667-  704 (57.33/43.52)	SIFRSPYLPKSYRVESSNSSsnnyvYGATPPGSPCFDG
  905-  937 (61.13/35.11)	SIEVSPSMPHGSFTEEGMIS.....YGQRQPLQELLDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.84|      17|     688|    1075|    1100|       5
---------------------------------------------------------------------------
 1084- 1100 (30.01/22.13)	SQSSGGGSSSLKVAMDG
 1780- 1796 (32.83/ 8.34)	SPSSGGTQGGNGVGPSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.45|      26|     493|     746|     787|       9
---------------------------------------------------------------------------
  760-  787 (39.92/46.14)	LVLSPFSNLssTNAIKSLPRKMTEGTLG
 1256- 1281 (44.52/17.47)	LSLSNGWDL..TSYLKSLSKALKTMKLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.29|      19|     606|    1226|    1244|      14
---------------------------------------------------------------------------
 1226- 1244 (34.52/23.53)	SSGFVLLDCPQSMKIESNN
 1857- 1875 (33.77/22.84)	STGFVVSKSVPSMRKDHKN
---------------------------------------------------------------------------




































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 MDP00650 with Med13 domain of Kingdom Viridiplantae
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