<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 MDP16737

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMCELFVCRRRYDLRKALEVQKGGLHHVSWFQFLPNESDLNALPDKRLKDAATFLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVETAQAAVSRLRVVASGLWVAPGDSEEVAAALSQALRNCIERALNGLSYLRFGDVFSKYQPSQSEESFRKGHPTIEFIFAATEEAIFIHALVSAKHIHSLSGGDMEKGFKHSSSSSSSLRLPVIVSPHGMRGRLTGYCPTDLVKQVYFRTSNGCVGLPHVSQGSGCQLNGQNCYVEVTMGCPRSGSDKASHINSNSLRNLHKHNVSESPSVGGGDPKGSPDNMSAYEKTFIYPAEAVLVPVLQTSFSRSSLRSFGNMDSLEGSWIETNGIHAQRGYNSSSNSNNSSISSISGSSSDSDYQMNARTGDLEADADSLTCRQSGLSSNDQLENEGPKLGSKRPRTGMIESFGQMGTGTNASTDFGSVENTSAITGVANDQIGPHWDWDDDDDRGMGMDIQALLSEFGDFGDFFENENLPFGETLWDGSVRRCVMWCFIIIVAQTHHYLSWALGACGRTPPGTAESQSFMFSAPDCGDVGSSPVVAMDVSDQMLMPNFSSFESFNPLPTMAVEECMGKSQEVTNNTLTSGQANQSQASSTGEFDHLMKAEALMTFAPEYGAVETPTSELSSSIFRSPYLPKSYRVESSNSSSNNYVYGATPPGSPCFDGSDEKNGTPVSKACSGKHDSSALLHSKKYYSHVESSKEQNDRKSVTHKDSNAKSDGLVLSPFSNLSSTNAIKSLPRKMTEGTLGVEHIFLSKKTVLATEVECLMFQASMCRIRHVLLYSSNPSPISLSRFTGSTVLNQLPGDLSSMTESTSGRYELKKKESIPVRIAGDFDGGLLDGHLNAPVGVWRSVGVAKVSKPTNSSSIEVSPSMPHGSFTEEGMISYGQRQPLQELLDGLPLLVQQATSFVDVALDADCGDGPYGWLALQEHWRQEFSCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSADIHASSVISLLQSEIRTALKSAFGSLDGPLSVTDWCKGRGQSVDAAALGDGSTESISECRDSSSTITVGEALSPSQSSGGGSSSLKVAMDGTKLDETGQRRLNQDIGSSESDHQLCARLKPTLFVLPSPAILVGYQDDWLKTSATSLQFWEKAPLEPYALPKPITYNVICPDIDPLTSAAADFFQQLGAVYETCKLGTHSPQNLGNQMEIDSGKSPSSGFVLLDCPQSMKIESNNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKTMKLGPCSSTQQKEGNSGPCTVIYVVCPFPEPLAILQTVIESSASLGSVAISSDRERALLHSQVGKALSCPAAVDETSISNVLAISGFSIPKLVLQILTVDEIFRVTSPAINELVLLKETAFTVYNKARRISRGSSGDVVHSSSLSSRSHSVMNQMASIPGMWKDCVGSRMTGPSLSREGEIDASLRPGTWDNSWQATRSGGLNCDPNRNGDFLIQDEIRFMFEPLFVLAEPGSLDHGVSSTFNGNSTSDDSTGGFMMSGSTAGSADTGSSSQLDRSEQDGFGSGHHKSVPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQILQQGCQILQTCCSPDSGVAKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEMKQWPLQLRRSVPDGMPSSTNGASLQQQQEISLIQERALPSSPSPLYSPHSKASGFMKGGLGQPVGRKQLIGGHTMVDNSRGLLQWVQSISFVAISIDHSLHLVHQADSPSSGGTQGGNGVGPSGYLEGFTPVKSLGATPASYILIPSPSMRFLPPAPLQLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKSVPSMRKDHKNKLKDEWPSVLSVNLIDYYGGNNISQDKVTRVIIKQGGRTASSEPKDFEVETHLILESIASELHALSWMTASPAYLNRRTALPFHCDMVLRLRRLLHFADRELSQQADNPQS
Length1991
PositionKinase
OrganismCitrus unshiu (Satsuma mandarin) (Citrus nobilis var. unshiu)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Sapindales> Rutaceae> Aurantioideae> Citrus.
Aromaticity0.07
Grand average of hydropathy-0.281
Instability index51.74
Isoelectric point5.61
Molecular weight214845.53
Publications
PubMed=29259619

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

>MDP16737
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     222.09|      64|     139|    1415|    1486|       1
---------------------------------------------------------------------------
 1415- 1486 (108.69/71.28)	GSSG..DVVHSSSLSSRSHSVMNQMASIPGM.....WKDCVGSRMTGPSLsregeiDASLRPGTWDNSWQATRsgGLNC
 1550- 1620 (113.40/58.88)	GSSSqlDRSEQDGFGSGHHKSVPSLHCCYGWtedwrWLVCIWTDARGELL......DSHIFPFGGISSRQDTK..GLQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     108.49|      29|     133|     761|     789|       3
---------------------------------------------------------------------------
  590-  614 (39.61/25.09)	.SDQMLMPNFSSFESFN...PLPTMAVEE
  618-  635 (20.33/ 8.40)	KSQEVT...NNTLTSGQANQS........
  761-  789 (48.55/32.84)	KSDGLVLSPFSNLSSTNAIKSLPRKMTEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.72|      43|     369|      36|      85|       4
---------------------------------------------------------------------------
   36-   85 (69.44/54.94)	ESD..LNALPDKRLKDAATFLV....LSSHLQLQKEGflstwtnSFVGPWDPSQGL
  400-  448 (66.29/37.92)	DSDyqMNARTGDLEADADSLTCrqsgLSSNDQLENEG.......PKLGSKRPRTGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.89|      23|     372|     698|     728|       5
---------------------------------------------------------------------------
  267-  292 (33.99/ 7.88)	GSGCqLNG..QNCYVEVTMGCprSGS.DK
  703-  728 (35.90/30.11)	GSPC.FDGsdEKNGTPVSKAC..SGKhDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     188.13|      45|     372|     935|     987|       6
---------------------------------------------------------------------------
  525-  577 (75.59/29.25)	LWDGsvrrcvmwcFIIIVAQTHHYLSWALGA.CGRTPPGTAESQSFMFSAPDCG
  939-  983 (84.36/49.41)	LLDG.........LPLLVQQATSFVDVALDADCGDGPYGWLALQEHWRQEFSCG
 1779- 1803 (28.18/ 6.91)	................LVHQADSPSSGGTQGGNGVGPSGYL.............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.90|      38|     607|    1207|    1249|       7
---------------------------------------------------------------------------
  652-  689 (68.79/28.54)	LMTFAPE.YG.AVETPTSELSSSIFRSPYLPKSYRVESSN
 1210- 1249 (58.11/29.65)	LGTHSPQnLGnQMEIDSGKSPSSGFVLLDCPQSMKIESNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     191.98|      61|     232|     825|     913|       8
---------------------------------------------------------------------------
  349-  373 (13.74/ 7.42)	SFSRSS.LRSF.GNM.....DSLEGSwieTNG...................................................
  837-  898 (99.97/61.99)	RFTGSTVLNQLPGDL.....SSMTES...TSGrYELKKKESIPV...RIAGDFD..........GGLLDGHLNAPVGVWRSVG
 1673- 1748 (78.27/25.67)	...GGSEMKQWPLQLrrsvpDGMPSS...TNG.ASLQQQQEISLiqeRALPSSPsplysphskaSGFMKGGLGQPVGRKQLIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.09|      42|     475|    1024|    1067|       9
---------------------------------------------------------------------------
 1024- 1067 (68.73/40.95)	LLQSEIRTALKSAF.....GSLDGPLSVTdwCKGRGQSVDAAA..LGDGST
 1495- 1543 (67.36/33.63)	LIQDEIRFMFEPLFvlaepGSLDHGVSST..FNGNSTSDDSTGgfMMSGST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.19|      35|     493|    1142|    1182|      11
---------------------------------------------------------------------------
 1142- 1182 (52.04/49.96)	SPAILVGYQDDWLKTSATSlqFWEkapLEPYALPKPItYNV
 1638- 1672 (64.14/40.18)	SPDSGVAKPRDFVITRIGS..FYE...LEYLEWQKAI.YSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     244.89|      76|    1106|     162|     250|      12
---------------------------------------------------------------------------
  162-  238 (123.98/62.46)	KYQPSQSEESFRKGH..P.TIEFIFAATEE..AIFIHALVSAKHIHSLS.GGDMEKGFKHsSSSSSSLRLPVIVSPHGMRGRL
 1284- 1364 (101.18/45.88)	KLGPCSSTQQ.KEGNsgPcTVIYVVCPFPEplAILQTVIESSASLGSVAiSSDRERALLH.SQVGKALSCPAAVDETSISNVL
 1382- 1412 (19.72/16.48)	.......DEIFRVTS..P.AINELVLLKET..AFTVYN..KARRI......................................
---------------------------------------------------------------------------




































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 MDP16737 with Med13 domain of Kingdom Viridiplantae
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