<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 MDP02850

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLSQVSWFQFHPVESDLSSLPDKRIKVEQKDAATLLVISSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQALRNRIERALLGLSYMRFGDVFSRYHPPQIEESIRRAQPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYLLPVIISPHGMCGKLTGCCPNDLVKQVYFSNSGKIGLPHRTSQSSVCQLRGQNCYVKVSLGCSKSRGDKPLNPNPDYIRNLPKHQSTEAYAMGRVDQKGPLDLLSVHEKTFIYPPEAVLVPVLQTSFARSSLRRFWLQNWIGPSLAGSSFFRHCDGNLDILEKSWAEFSGIHTQHCYNSSSNSNNSSISSLSSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMETDCLKLGSKRPRIGMTESYGQAGVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSFDSFNPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTFAVEYGAVETPASDSSSVFRNPYLPKSRKVESSNSSQSNYKYAATPPSFPCFGGLDEKTGMPMNLKAHPGGHDSNSMLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGTSQFGNLYSIKSDKSASRKMTQGVFGGERILLSMKTVLGTEVECSMFQASMLRMRHILLSPTSPATINLSRPTASSVLNQLPDDPSTMADNLSSRYEVKKESIPFKSAGDIDGVMLDGHLNAPVGVWRTVGAPKVSKLATSSIEASPSLTHNLYNEESMLSYGQSQPLQELLDGIPLLVQQATSFVDLALDADGGDCPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCRGRGQSGDVGASADGSSTESNISECRDSSSTVTLSVGEAVSPSQTSVGGSSYLKDGGKVDETSQRRLNQETSGSELEQQQSSRLRSTLFVLPSPALLVGYQDDWLKTSGNSLQLWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGIVYETCKLGTHSPQSLGNQMEIDSGKWFSSGFVLLDCPQSMKIESSNASLLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGISSPCLVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQIGKALSSSAAADEASVSNIPVVSGFSVPKVVVQIVTVDAIFRVTSPPFNELIILKEMAFTVYNKARRISRGSMNDLALSSSLSRSHSVLTPMTSIPTMWKDSVGSRIPGSSIPREGEIDSSLRGGAWENSWQTRTGGLSCDPNRNGDFFYPDEVRYMFEPLFILAESGSLEHGVSPTAFGNSTSETSKIVSDESGGGFMQAANSVGSTDPGSGSQHVGLEPDGLDSSNQKIPSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCHILQACTSSDTGVVKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQERTLPSSPSPLYSSHTKASFMKGGLGQPAARKQLLSGQTLVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLHLPTCLTAESPPLAHLLHSKGFAIPLSTGFVVSKAVPSMRKDYRNHPKEEWPSVLSISLIDYYGGNKVTQDKVIRGTAKQAGRTPSSESRDSEIDNHLILASIAAELHALSWMTVSPGFLDRRTALPFHTDMVLRLRRLLHFAEKELSGQPDKSQV
Length1943
PositionKinase
OrganismGossypium raimondii (New World cotton)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Malvoideae> Gossypium.
Aromaticity0.08
Grand average of hydropathy-0.249
Instability index51.01
Isoelectric point5.70
Molecular weight210824.91
Publications
PubMed=23257886

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

>MDP02850
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     313.32|      97|     350|     267|     391|       1
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  272-  384 (147.47/120.77)	VSLGCSKSRGDKP...LNPNPDYIRNLPKHQS.TEAYAMGRVDQKGPLDLLSVhektfiyppEavLVPVLQTSFARSSLRRFwLQNWIGPSLagSSFFRHCDGNLDILEksWAEFSG
  903- 1003 (165.85/87.88)	VDLALDADGGDCPyswLALQEHWRRGFCCGPSmVHAGCGGTLASCHSLDIAGV.........E..LVDPLSANIHASSVISL.LHSDIKSAL..KSAFGSLDGPLSVTD..WCRGRG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     810.42|     212|     631|     390|     642|       2
---------------------------------------------------------------------------
  390-  602 (354.90/183.28)	CYNSSSNSNNSSISSLSSSSSDSV.............TTGA..........................................RDLEADADSSCRQSGLSSNDQMETDCLK..LGSKRPRIGMTESYGQAG.VGND.QIGSNWD..WDDDDRGIVM..............DIQSLLSEFGDF....GDFFENDVLPFGEP.PGTAESSAIMFGASDC..GDVGSSPAGVM.DTSDQMLLPVGlPSFDSFNPP.LPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEA
 1024- 1246 (273.58/134.13)	CRDSSS.TVTLSVGEAVSPSQTSVggssylkdggkvdETSQ..........................................RRLNQETSGSELEQQQSS..RLRSTLFV..LPSPALLVGYQDDWLKTS..GNSlQLWEKAP..LEP.......yalpkpinysvicpDIDPLTSAAADFfqqlGIVYETCKLGTHSP.QSLGNQMEI.....DS..GKWFSSGFVLL.DCPQSM.......KIESSNASlLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEG
 1299- 1505 (181.95/123.93)	ALSSSAAADEASVSNIPVVSGFSV.............PKVVvqivtvdaifrvtsppfneliilkemaftvynkarrisrgsmNDLALSSSLSRSHSVLTPMTSIPT.MWKdsVGSRIP..G..SSIPREGeIDSS.LRGGAWEnsWQTRTGGLSC..............DP....NRNGDF......FYPDEVRYMFEPlFILAESGSLEHGVSPTafGNSTSETSKIVsDESGGGFMQAA.NSVGSTDP..............................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     305.89|     100|     633|      99|     205|       4
---------------------------------------------------------------------------
   99-  205 (148.38/100.62)	SAQSAVSRLRVVASGLWlapGdSEEVAAALSQALRNRIERALLGLSYMRFGDVFsryHPPQIEESIRRAQPTIEFIFAATEESIFVHA.IISSKH......IRTLSTGDIEKVL
  726-  832 (157.51/88.76)	SIKSDKSASRKMTQGVF...G.GERILLSMKTVLGTEVECSMFQASMLRMRHIL...LSPTSPATINLSRPTASSVLNQLPDDPSTMAdNLSSRYevkkesIPFKSAGDIDGVM
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.87|      33|     750|     870|     902|       6
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  870-  900 (48.77/24.45)	.................LYNEESMLSYGQSQ....PL..Q...ELLDGIPL......LVQQAT
 1611- 1661 (35.20/15.56)	SF..........yeleyLEWQKAIYSVGGSEvkkwPL..QlrrSVPDGMPAntngtsLDQQEM
 1662- 1705 (20.89/ 6.19)	SLiqertlpsspsplysSHTKASFMKGGLGQ....PAarK...QLLSGQTL............
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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 MDP02850 with Med13 domain of Kingdom Viridiplantae
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