<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 MDP12918

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLSQVSWFQFHPVESDLSSLPDKRIKVEQKDAATLLVISSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQALRNRIERALLGLSYMRFGDVFSRYHPPQIEESIRRAQPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYLLPVIISPHGMCGKLTGCCPNDLVKQVYFSNSGKIGLPHRTSQSSVCQLRGQNCYVKVSLGCSKSRGDKPLNPNPDYIRNLPKHQSTEAYAMGRVDQKGPLDLLSVHEKTFIYPPEAVLVPVLQTSFARSSLRRFWLQNWIGPSLAGSSFFRHCDGNLDILEKSWAEFSGIHTQHCYNSSSNSNNSSISSLSSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMETDCLKLGSKRPRIGMTESYGQAGTVTNAPTEDVYKSNIRSMEVNRSVITGVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSFDSFNPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTFAVEYGAVETPASDSSSVFRNPYLPKSRKVESSNSIQSNYKYAATPPSFPCFGGLDEKTGMPMNLKAHPGGHDSNSMLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGTSQFGNLYSIKSDKSAGRKMTQGVFGGERILLSMKTVLGTEVECSMFQASMLRMRHILLSPTSPATISLSRPTASSVLNQLPDDPSTMADNLSSRYEVKKESIPFKGAGDIDGVMLDGHLNAPVGVWRTVGAPKVSKLATSSIEASPSLTHNLYNEESMLSYGQSQPLQELLDGIPLLVQQATSFVDLALDADGGDCPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCRGRGQSGDVGASADGSSTEXXXXNISECRDSSSTVTLSVGEAVSPSQTSVGGSSYLKDGGKVDETCQRRLNQETSGSELEQQQSSRLRSTLFVLPSPALLVGYQDDWLKTSGNSLQLWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGIVYETCKLGTHSPQSLGNQMEIDSGKWFSSGFVLLDCPQSMKIESSNASLLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGISSPCLVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQIGKALSSSAAADEASVSNIPVVSGFSVPKVVVQIVTVDAIFRVTSPPFNELVILKEMAFTVYNKARRISRGSMNDLALSSSLSRSHSVLTPMTSIPTIWKDSVGSRIPGSSIPREGEIDSSLRGGAWENSWQTRTGGLSCDPNRNGDFFYPDEVRYMFEPLFILAESGSLEHGVSPTAFGNSTSEISKIVLDESGGGFMQAANSVGSTDPGSGSQHVGLEPDGLDSSNQKIPSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACTSSDTGIVKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQERTLPSSPSPLYSSHTKASFMKGGLGQPAARKQLLSGQTSVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLHLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRKDYRNHPKEEWPSVLSISLIDYYGGNKVTQDKVIRGTAKQAGRTPSSESRDSEIDNHLILASIAAELHALSWMTVSPGFLDRRTTLPFHTDMVLRLRRLLHFAEKELSGQPDKSQV
Length1973
PositionKinase
OrganismGossypium hirsutum (Upland cotton) (Gossypium mexicanum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Malvoideae> Gossypium.
Aromaticity0.07
Grand average of hydropathy-0.245
Instability index50.16
Isoelectric point5.69
Molecular weight213612.10
Publications
PubMed=25893780

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

>MDP12918
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     364.83|     116|     923|     459|     584|       1
---------------------------------------------------------------------------
  459-  584 (188.26/124.43)	YGQAGTVTNAPTEDVYKSNirSMEVNRSVITG......VGNDQIGSNWD......................WDDDDRGIVMDIqsllSEFGDFgdFFENDVLPFGEP.PGTAESSAIMFGASDCGdVGSSPAG....VMDTSDQMLLPVGlPSFDSFNP
 1387- 1535 (176.57/93.31)	YNKARRISRGSMNDLALSS..SLSRSHSVLTPmtsiptIWKDSVGSRIPgssipregeidsslrggawensWQTRTGGLSCDP....NRNGDF..FYPDEVRYMFEPlFILAESGSLEHGVSPTA.FGNSTSEiskiVLDESGGGFMQAA.NSVGSTDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     205.27|      65|      68|     692|     759|       2
---------------------------------------------------------------------------
  692-  759 (105.69/81.69)	GMPMNLKAHpGGHdsNSMLQLKKYY.THVETREERYG....RRLLTHNDSNATNEMSGTSQFGNLYSIKSDKS
  761-  830 (99.59/65.57)	GRKMTQGVF.GGE..RILLSMKTVLgTEVECSMFQASmlrmRHILLSPTSPATISLSRPTASSVLNQLPDDPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     259.16|      89|     511|    1028|    1356|       3
---------------------------------------------------------------------------
  189-  297 (122.52/ 6.41)	SSKHIrTLSTGDIEKVLEHSSNNTSYLlpviisPHGmcGKLTGCCPNDLVKQVYFSN.....SGKIglphrTSQ....SSVCQLRG.QNCYVKVSlGCSKSRGDK.PLNPnpdYirNLPK
 1057- 1156 (136.64/366.87)	SSSTV.TLSVGEAVSPSQTSVGGSSYL......KDG..GKVDETCQRRLNQETSGSEleqqqSSRL.....RSTlfvlPSPALLVGyQDDWLKTS.GNSLQLWEKaPLEP...Y..ALPK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     277.52|      88|    1388|     314|     409|       4
---------------------------------------------------------------------------
  314-  409 (141.39/107.16)	PLDLLSVHEK.TFI.....YPPEAVLVPVLQTSFARSslrRFWLQnWIgPSLagsSFFR.HCDGNLDILEKSWAEFSGIHTQHCYNSSSNSNN.SSISSLSSSS
 1703- 1798 (136.13/81.28)	PSPLYSSHTKaSFMkgglgQPAARKQLLSGQTSVDNS...RGLLQ.WV.QSI...SFVSvSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGfTPVKSLGSTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.66|      25|      61|    1170|    1194|       6
---------------------------------------------------------------------------
 1170- 1194 (44.62/23.72)	LTSAAADFFQQLGIVYE.TCKLGTHS
 1232- 1257 (41.05/21.26)	LLGSISDFFLSLSNGWDmTCYLKSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.42|      15|     506|    1342|    1356|       7
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 1342- 1356 (27.38/15.62)	SNIPVVSGFSVPKVV
 1839- 1853 (26.03/14.46)	SAIPLSTGFVVSKAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.66|      15|     506|     419|     433|       8
---------------------------------------------------------------------------
  419-  433 (27.95/15.83)	DLEADAD.SSCRQSGL
  931-  946 (26.72/14.76)	DLALDADgGDCPYSWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.39|      13|     506|    1028|    1041|       9
---------------------------------------------------------------------------
 1028- 1041 (20.33/16.92)	GRGqSGDVGASADG
 1536- 1548 (26.07/16.44)	GSG.SQHVGLEPDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.47|      20|     319|     992|    1011|      12
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  992- 1011 (34.90/26.65)	IHASSVI........SLLHSDIKSALKS
 1305- 1332 (27.57/19.09)	IAVGSIIlpsdrdkrSLLHSQIGKALSS
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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 MDP12918 with Med13 domain of Kingdom Viridiplantae
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