<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 MDP12925

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLSQVSWFQFHPVESDLSSLPDKRIKVEQKDAATLLVISSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQALRNRIERALLGLSYMRFGDVFSRYHPPQIEESIRRAQPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYLLPVIISPHGMCGKLTGCCPNDLVKQVYFSNSGKIGLPHRTSQSSVCQLRGQNCYVKVSLGCSKSRGDKPLNPNPDYIRNLPKHQSTEAYAMGRVDQKGPLDLLSVHEKTFIYPPEAVLVPVLQTSFARSSLRRFWLQNWIGPSLAGSSFFRHCFCSDGNLDILEKSWAEFSGIHTQHCYNSSSNSNNSSISSLSSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMETDCLKLGSKRPRIGMTESYGQAGVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSFDSFNPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTFAVEYGAVETPASDSSSVFRNPYLPKSRKVESSNSIQSNYKYAATPPSFPCFGGLDEKTGMPMNLKAHPGGHDSNSMLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGTSQFGNLYSIKSDKSAGRKMTQGVFGGERILLSMKTVLGTEVECSMFQASMLRMRHILLSPTSPATISLSRPTASSVLNQLPDDPSTMADNLSSRYEVKKESIPFKGAGDIDGVMLDGHLNAPVGVWRTVGAPKVSKLATSSIEASPSLTHNLYNEESMLSYGQSQPLQELLDGIPLLVQQATSFVDLALDADGGDCPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCRGRGQSGDVGASADGSSTEXXXXNISECRDSSSTVTLSVGEAVSPSQTSVGGSSYLKDGGKVDETCQRRLNQETSGSELEQQQSSRLRSTLFVLPSPALLVGYQDDWLKTSGNSLQLWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGIVYETCKLGTHSPQSLGNQMEIDSGKWFSSGFVLLDCPQSMKIESSNASLLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGISSPCLVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQIGKALSSSAAADEASVSNIPVVSGFSVPKVVVQIVTVDAIFRVTSPPFNELVILKEMAFTVYNKARRISRGSMNDLALSSSLSRSHSVLTPMTSIPTIWKDSVGSRIPGSSIPREGEIDSSLRGGAWENSWQTRTGGLSCDPNRNGDFFYPDEVRYMFEPLFILAESGSLEHGVSPTAFGNSTSEISKIVLDESGGGFMQAANSVGSTDPGSGSQHVGLEPDGLDSSNQKIPSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACTSSDTGIVKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQERTLPSSPSPLYSSHTKASFMKGGLGQPAARKQLLSGQTSVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLHLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRKDYRNHPKEEWPSVLSISLIDYYGGNKVTQDKVIRGTAKQAGRTPSSESRDSEIDNHLILASIAAELHALSWMTVSPGFLDRRTTLPFHTDMVLRLRRLLHFAEKELSGQPDKSQV
Length1949
PositionKinase
OrganismGossypium hirsutum (Upland cotton) (Gossypium mexicanum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Malvoideae> Gossypium.
Aromaticity0.08
Grand average of hydropathy-0.239
Instability index49.82
Isoelectric point5.69
Molecular weight210985.23
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

>MDP12925
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     171.17|      51|      51|     505|     555|       1
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  505-  555 (89.37/50.61)	NDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSF
  559-  609 (81.80/45.62)	NPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.53|      39|      94|    1057|    1096|       2
---------------------------------------------------------------------------
 1057- 1096 (62.33/39.14)	YLKDGGKVDETCQRRLNQETS.GSELEqQQSSRLRSTLFVL
 1153- 1192 (68.19/38.89)	FFQQLGIVYETCKLGTHSPQSlGNQME.IDSGKWFSSGFVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.07|      27|      42|     313|     342|       3
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  313-  342 (42.92/35.74)	GP.LDLLSVHEKTFIYPPEavlVPVLQTSFA
  356-  383 (47.16/31.11)	GPsLAGSSFFRHCFCSDGN...LDILEKSWA
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.71|      10|     579|     633|     642|       4
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  633-  642 (18.96/11.43)	PKSRKVESSN
 1196- 1205 (19.75/12.24)	PQSMKIESSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     796.36|     250|    1364|      20|     288|       6
---------------------------------------------------------------------------
   20-  288 (386.60/284.16)	HPVESDLSSLPdkrikVEQKDAATLLVISShlQLQKEGFL......SAWTNSF...VGPW..DPSQG..LHNPDEkIKlWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQAlRNRIERALLGLSYMRFGdvfsrYHPPQIEESIRRAqPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYL..LPVIISPHGmCGKLTGCCPND..LVKQVYFSNSgKIG....LPHRTSQSSVCQLRGQNCYvKVSLGCSKSRGD.KPLNPN
 1387- 1658 (409.76/247.30)	HSVLTPMTSIP.....TIWKDSVGSRIPGS..SIPREGEIdsslrgGAWENSWqtrTGGLscDPNRNgdFFYPDE.VR.YMFEPLFILAESGSLEHGVSPTAFGNSTSEISKIVLDESGGGFMQA.ANSVGSTDPGSGSQHVG.....LEPDGLDSSNQKI.PSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLqcLFVQVLQQG.CQILQACTSSDtgIVKPRDFVIT.RIGsfyeLEYLEWQKAIYSVGGSEVK.KWPLQLRRSVPDgMPANTN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.96|      29|     579|     415|     474|       7
---------------------------------------------------------------------------
  423-  451 (52.84/65.13)	LEADADSSCRQSGL....SSNDQMETDCLKLGS
 1740- 1772 (47.12/ 9.31)	LQADSPSSGTHSGTgpgqSSYIEGFTPVKSLGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.47|      20|     319|     968|     987|       9
---------------------------------------------------------------------------
  968-  987 (34.90/25.16)	IHASSVI........SLLHSDIKSALKS
 1281- 1308 (27.57/17.98)	IAVGSIIlpsdrdkrSLLHSQIGKALSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.42|      15|     494|    1318|    1332|      13
---------------------------------------------------------------------------
 1318- 1332 (27.38/18.79)	SNIPVVSGFSVPKVV
 1815- 1829 (26.03/17.42)	SAIPLSTGFVVSKAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     176.29|      57|    1220|     644|     720|      14
---------------------------------------------------------------------------
  660-  719 (94.05/86.64)	FGGL.....DEKTGMPMNLKAHpGGHdsNSMLQLKKYY.THVETREERYG....RRLLTHNDSNATNEMS
  724-  790 (82.25/36.09)	FGNLysiksDKSAGRKMTQGVF.GGE..RILLSMKTVLgTEVECSMFQASmlrmRHILLSPTSPATISLS
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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 MDP12925 with Med13 domain of Kingdom Viridiplantae
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