<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. 
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
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