<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 MDP12135

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRSESDPNINRFAVSHLQQNPNSIHRSLHNNIPVMWTNVFKIGSLHQISWFQYLPHEPDLNPLPDKSVKMDQKDAANLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQPAVCRLRVVASGLWLAPGDSEEVAAALSQALRSRIERALLGLCYMRFGDVFSKFHQFQSEELFRRGQPAVEFAFAATEEAIFIHVIVSSKHIRMLTTSDLEKVLKHSVESACRLPVIVSPHGIRGSLTGCSPSDLVKQSYFSSTKFRVSNGIIGLPYNVSQGVGCQLRGQNCYVEVSLGFSRSGTDNSLQPNKISARNLPTLHVAESPITGRSDHKGSADHLSDYXKTFLYPTEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPSSSSFIHCAGNEDCCEDPWTEINGARMQNSYDSSSNSNSSSISSLSASSSDSDYKTTGPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDTYMSDFGSVEVNNSAITGVGNEPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFSSPDYGDVNSSPGGVIDVPDQMLLPVGFPSFESFNPPPSTSVEECLNKSQDNLNNSMSLGPSNHSQMLHTREFDHIMKAEAMMTFAPEFGAVETPTCELSTTLFRSPYFPKCRKAESSNSSSNNYLYGSAPPSSPCNEGSEGKNGMSVNTKTGSGKHDSSTSLLSKHYYTFVESRKEKNDKNPVICNDNSIAKSEGILPLSNIGSNAIVKSSLRKTAEGTHEPEHVLLSAKTLLATDITCVMLQASVCRLRHILLSSGNLMPIGFSRSTGVSFLNQLPSDPNTATDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGSSKVVKPSNSPNMEVGPSFSHSSFNEEGILSYGQRKPLQELLDGIALLVQQALSFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGTLASSHSLDIAGLELVDPLSADVHASTVISLLQSDIKTALKSAFSNLEGPLSITDWCKGCNPLVDTGSIVDGVSVESTNNECRDSSEPMSPSQSSVGGSSSIKVSNMMDGAKVDENSQRRSGLDLCSTESEQQTCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESSKLSSCGFVLLDCPQSMKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGNNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVVQQLDRERKSSLHSQVVKALSGLAAVDEASPSNVLVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYCKARRISRGISSDFSQSAFSGRSHSVLTQLPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDIFLLDEIRYMFEPLFILAEPGSLESGISVIGSPTSESSKALVDDSSGNYVQSTSTAGSVESASSTDGSGSDPKTPASLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLIIQSCDPGLARPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGLSATSNGSSLQQQDMSLIPERTLPSSPSPLYSPHTKSTGFLKGNLGQPAARKQLMGGHSMVDNSRGLLHWAQSISFVAVAMDHTLQLVHPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNLKEEWPSILSVSLIDYYGGTNIPQEKVVRGINKQAGRSLSWEAKDFEIETHLVLESIAAELHALSWMTVSPVYLERRTALPFHCDMVLRLRRLLHFADKELTKQSEKS
Length1986
PositionKinase
OrganismVigna radiata var. radiata (Mung bean) (Phaseolus aureus)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> indigoferoid/millettioid clade> Phaseoleae> Vigna.
Aromaticity0.07
Grand average of hydropathy-0.229
Instability index54.85
Isoelectric point5.52
Molecular weight215502.49
Publications
PubMed=25384727

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP12135
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.77|      24|      52|    1553|    1576|       1
---------------------------------------------------------------------------
 1553- 1576 (39.77/21.73)	DSSGNYVQ.STSTAGSVESASSTDG
 1606- 1630 (38.00/20.42)	DSRGELLDcNIFPFGGISSRQDTKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     197.14|      50|      59|    1695|    1744|       3
---------------------------------------------------------------------------
  314-  357 (46.46/18.45)	......GFSRSGTDNSLQP..NKIS......ARNLPTlhvAESPItgRSDHKGSA.DHL..
 1695- 1744 (88.91/41.74)	RKSMSDGLSATSNGSSLQQ..QDMSLIP...ERTLPS...SPSPL..YSPHTKST.GFLKG
 1752- 1802 (61.76/26.84)	RKQLMGGHSMVDNSRGLLHwaQSISFVAvamDHTL.......Q.L..VHPADSSTpGYIEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.68|      24|      59|     845|     869|       4
---------------------------------------------------------------------------
  845-  869 (42.18/30.67)	GNL.MPIGFSRSTGVSFLNQlPSD.PN
  902-  927 (37.50/22.01)	GHLnAPVGVWRTLGSSKVVK.PSNsPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     248.14|      68|     473|      27|     164|       5
---------------------------------------------------------------------------
   83-  152 (121.38/33.80)	SHLQLQKEGFL...STWTNSFVGP....WDPSQGLHNP..DEKIK...LWLFLPGRHSSVVETAQPAVCRLRvvASGLWLAP
  647-  694 (56.28/69.72)	......................GP....SNHSQMLHTRefDHIMKaeaMMTFAP..EFGAVET..P.TCEL...STTLFRSP
  775-  838 (70.48/ 7.51)	DNSIAKSEGILplsNIGSNAIV..ksslRKTAEGTHEP..EHVLL...SAKTLLATDITCV.MLQASVCRLR..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.67|      31|      53|     534|     565|       8
---------------------------------------------------------------------------
  534-  565 (58.22/36.54)	PIGS............YWDWDDDDRGMeMDI..QALLS.EFGDFGDF
  576-  621 (41.45/20.86)	PPGTaesqalmfsspdYGDVNSSPGGV.IDVpdQMLLPvGFPSFESF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.30|      50|      53|    1148|    1200|      10
---------------------------------------------------------------------------
 1148- 1200 (81.02/62.97)	LKP.TLIALPFPSILvG..YQDDWLKT.SANSLQhwEKAPLEPYALQKPITYHVVCP
 1202- 1255 (76.29/47.19)	IDPlTSAAADFFQQL.GtvYETCKLGThSPQGLG..NQMEIESSKLSSCGFVLLDCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.65|      18|     473|      27|      44|      12
---------------------------------------------------------------------------
   27-   44 (35.09/24.47)	SLHNNIPVMWTNVFKIGS
  502-  519 (33.56/23.05)	STATNIPVQDTYMSDFGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.75|      33|     392|    1036|    1070|      13
---------------------------------------------------------------------------
 1036- 1070 (48.73/30.85)	STVIS..LLQSDIKTALKSAFSNLEGPLSiTDWcKGC
 1429- 1463 (56.02/26.83)	SRGISsdFSQSAFSGRSHSVLTQLPSPIS.GMW.KDC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.09|      29|      29|     220|     248|      14
---------------------------------------------------------------------------
  220-  248 (48.92/27.89)	VIVSSKHIR.MLTTSDLEKVLKHSVESACR
  251-  280 (47.18/26.63)	VIVSPHGIRgSLTGCSPSDLVKQSYFSSTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.72|      30|     582|     701|     750|      16
---------------------------------------------------------------------------
  716-  745 (54.56/25.63)	SAPPSSPCNEGSEGKNGMSVNTKTGSGKHD
 1095- 1124 (51.16/16.91)	SSEPMSPSQSSVGGSSSIKVSNMMDGAKVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.52|      13|     582|     701|     713|      17
---------------------------------------------------------------------------
  701-  713 (23.67/12.92)	KAESSNSS.....SNNYL
 1259- 1276 (17.85/ 7.69)	KIESSNASlvgsvSDYFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.77|      15|     582|     408|     430|      18
---------------------------------------------------------------------------
  408-  422 (31.33/10.17)	AGNEDCCEDPWTEIN
  974-  988 (27.44/ 7.37)	ALDADCGDGPYGLLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.51|      29|     828|     426|     460|      19
---------------------------------------------------------------------------
  426-  457 (40.30/37.67)	MQNSYDSSSnSNSSSISSlsASSSDSDYKTTG
  461-  489 (50.21/25.63)	LEADADSLT.CRQSMVSS..ADQLDSDGPKLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.84|      28|     146|    1493|    1521|      21
---------------------------------------------------------------------------
 1493- 1521 (50.00/32.13)	QPTRTGGL...SCDP..SRTGDiFLLDEIRYMFE
 1637- 1669 (44.84/24.19)	QILQQGCLiiqSCDPglARPRD.FVIARIGGFYE
---------------------------------------------------------------------------




































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 MDP12135 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARMQNSYDSSSNSNSSSISSLSASSSDSDYKTTGPSELEADADSLT
2) SSSNNYLYGSAPPSSPCNEGSEGKNGMSVNTKTGSGKH
3) STSVEECLNKSQDNLNNSMSLGPSNHSQMLHTREF
424
707
626
469
744
660










Molecular Recognition Features






MoRF SequenceStartStop




1) SSTPPADYV
758
766