<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 MDP22639

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMPHPSPSPVPAVAGGGEEDGPGAPAHPAPLPAHTTEGELHVTPAATRAGEIGDASRQLNAADDVADFTLYCTGRNTGDFIKAVSLPSTLNMWTNIFKIGELQTVSWFQFLPVEPDYSATSDRSSKAEQKDALNSTVLSAYLRLQNEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLSGRHSSVPEMTQPAVAKLRVVSSGLWVAPGNSEEVAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTGKTSESENNQIKKELDSVNDPHLGADGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDCMGSSPCEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNSNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSAACRQSDLPLNNDIAGSKVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEEGVVMDIDILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEYGDMPFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPAALFTNPYLPRSKKRGSCGFSSRVYSYDVTQSSKVESARDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTMQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSAMQTESSSNSDLVPKYDMKRKESIPARLSSDADHEMYDRSRLENVGVWRSVVVPKGAKPLDSLSAKTFSGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESVAMGDAYSFHYTGDIRESSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSASCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYQPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARIIKEIKLNLNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYAQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAAFKDIAFTVYNKARRIPRFVSTSDMFQSPTYMSRSQSAMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAVGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRVYSSISGGTDSGASPLLEGSENDSAMSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNMRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIQDRNMPSSPSTLYSPHPKSSFTKGQPGNKKQILAEQTGIEGSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSSTGASSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKQPTKEDSRHSVLSVSIVDYYGGTVQDKMSRGSKQAARHETSARDYVTDMHNVLEAVAAELHALSWMTVSPVYMERRSALPFHCDMVLRLRRLLHYADRHLSQPTDKGDVS
Length1978
PositionKinase
OrganismTriticum aestivum (Wheat)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Triticinae> Triticum.
Aromaticity0.07
Grand average of hydropathy-0.307
Instability index59.72
Isoelectric point5.71
Molecular weight215052.41
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	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

>MDP22639
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.30|      22|      54|     427|     448|       1
---------------------------------------------------------------------------
  427-  448 (39.46/25.62)	VHQ.AFVRFSSKRMWSQDCMGSS
  450-  472 (33.85/20.64)	CEAwPFWNFSPSSYFRNSSFFGS
  478-  499 (33.99/20.76)	VNS.NFLRLRRQRNSNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.68|      19|      54|     758|     776|       2
---------------------------------------------------------------------------
  758-  776 (32.06/22.53)	QSSKVESARDKSEK...SDKLT
  810-  831 (26.63/17.05)	QSCKGETSRPVSGEtsfSSSLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.20|      52|      54|     589|     641|       3
---------------------------------------------------------------------------
  589-  641 (88.84/47.55)	MDI.DILLSEFGdFSDF..FQEDELDFGEPPGTAESHALVTPASEYGDMPFIDSPS
  644-  698 (77.35/37.17)	MDIpEQRLSPVG.FTSMeaFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     388.55|     117|     122|    1335|    1452|       4
---------------------------------------------------------------------------
 1270- 1330 (34.12/12.92)	...LSKSWSVKSFLssLARIIKEikLNLNISTNQK.ESSNipctvVYVVCPFP.EPSAVLQ...TL.VES.....................................................................
 1335- 1452 (196.02/118.63)	GSILSSERERKSFL..YAQVAKA..LNSSASADEA.SASN.....VVMLSGFS.IPKLVLQ...IVTVETLLRLHKPNELaAFKDIA....FTVYNKARRIPRFVS.TSDMFQSPTYM.SRSQSAM.MHTASPGPTLWK
 1461- 1580 (158.42/91.29)	GQTLSRETE...F........DA..SMRSVSWDNSwQPGR.....AVGLPDPSkIPELCAQddrKYAFEPLFILAEPGAV.DYNDTMessrFGVDASSSRVYSSISgGTDSGASPLLEgSENDSAMsLHCCYGWTEDWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     194.92|      62|     322|      21|      86|       5
---------------------------------------------------------------------------
   21-   86 (100.22/61.78)	PGAPAHPAPL......PAHTTEGELHVTPAATraGEIGDA.SRQLNAA.DDVADFTLYCTGRNTGDfiKAVSLP
  340-  409 (94.70/48.61)	PNLPGFTQPTicqlrgQSYYVEVALGFPPAST..GKTSESeNNQIKKElDSVNDPHLGADGQQKLE..SADGLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.00|      24|      53|     946|     970|       6
---------------------------------------------------------------------------
  946-  970 (35.43/26.62)	LDSLSAKTFSgTSPSVQRQPIVELL
 1002- 1025 (45.56/29.57)	LDEQRRRGFS.CDPSMVHAGCGGLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     185.18|      48|     122|    1078|    1125|       9
---------------------------------------------------------------------------
 1078- 1125 (84.71/43.14)	DWCRGRSNIAESVAMGDAYSFHYTGD.IRESSNSIPIGGDAM..SPPQSSS
 1156- 1182 (22.81/ 6.25)	......................YQDDwLKTSASCLKLWEKAP..LEPYASA
 1203- 1252 (77.66/38.94)	DFFMQLGTIYEVCKLGTHSPQHSGGQ.IEQSPGKYQPSGLVLveCPDQLKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.29|      15|      27|     148|     162|      14
---------------------------------------------------------------------------
  148-  162 (31.16/18.17)	FLSTWTNSFVGPWDP
  178-  192 (28.13/15.60)	FLSGRHSSVPEMTQP
---------------------------------------------------------------------------




































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 MDP22639 with Med13 domain of Kingdom Viridiplantae
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