<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 MDP20011

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMATQSAIASWQKFLNHSLVTRLDPEPFTTYIRILSSKSPLSSSYICSIFLRPQSHNDTSIDPRILRYLQILLAEELVDCAGVLRALLKYSSLWTFRHDGNLQQEATGGTEKAKGVKEAAQRWKNSYSAEEMMLYRLAKTVSSGAAPKSAQEAVEILAVCIQWMEMVTTAMGQGAHAMLNPESHAEEIGMLGMALGTLMVAVVGNVKILEALEKGHCQKGTVKELGKALNGFVPLLLQNSPQNAARLDVFRSQTLLTITPVDKKEQAADEEINEIIDSTIGIDSIAVADLPTVNSRAGLYVYLSSLGVMNILANRRFQLVGRPLIDDSAIFTYLQNRYQGDIQATMIDLILTSFDVLANATFRNEGQQTTTILRSFLVNKLPLLLSTLATSLYPPLTSEYCITEALGHVNTDAFPTLSTLFAESSNNDMFSDSVRQDFCFACCLHGLIPEPSIETLLGDIPMQSLPAGGRYSKHDLVQQCLSDSERTEGLISELENMDGNVGARYNILPNYIMISNKRQVIRHLCSSKETMTLKSLCSQLARNPSTLDVMLLFDKPTSFLQPICDLLDNWHYDEDQGEYQPVYEEFGSILLLVVLFTHRYNLSVVDLGIRAPNSFVARLLTQGHLSRALEPLTEQEQSHLDGWIRGLFEPEGGGLGDELMSSCPPQDFYLLVPTLFHHIVLALSTNNLTEEGLKGGLEFMVEPFLLPCLIPGINWLSAHLWASRGDANAVLQILSALITNPSSSNAEASQLLNSILKIIAKNLEHSLRWLQRAEPVRHDIEPISKALKPNLGWERRGASGHTELESWTATPGGGLVASIKHTISTLVQWGLDPAMNTMPASYTHRQILIGMKILGAKRLLNAIIDEVKTQTQAGNGSVVLDIATSLICAPDPVSFDSSTSASIDLLSGVSSSPQPLQRRLNLREALKVETDKMPKVHKTDTFHAETVIRLFRRVEAQLAQQQSLLPHDDGLGGLNAVMGDGVMGDAGLGAAEQQDIDDMVTANDDLMSGLMGGTGHGDDLLDSFGAGDGLGDGMGF
Length1035
PositionTail
OrganismRutstroemia sp. NJR-2017a BBW
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Rutstroemiaceae> Rutstroemia> unclassified Rutstroemia.
Aromaticity0.06
Grand average of hydropathy-0.039
Instability index49.01
Isoelectric point5.11
Molecular weight113195.06
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP20011
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     119.41|      34|     197|     456|     496|       1
---------------------------------------------------------------------------
  429-  449 (22.76/ 7.35)	..................F.........S..DSVRQdfCFACC..LHGLIPE
  452-  492 (53.04/47.19)	IETLLGDIpmqslpaGGRY.........SKHDLVQQ..CLSDSERTEGLISE
  493-  534 (43.62/24.84)	LENMDGNV.......GARYnilpnyimiSNKRQVIR..HLCSSKETMTLKS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     432.72|     140|     147|     616|     762|       2
---------------------------------------------------------------------------
  616-  680 (73.45/53.00)	...................................................................................................................ARLLTQGHLSRALEPLTEQEQS...HLDGWIRGLFEPEGGG.LGDELMS.SCPPQDfyLLVPTLFHHI.VL
  681-  825 (200.31/155.50)	ALST..NNLTEEGLKGGLEFMVEPFLLPCLIPGINWlsahlWASRGDANAVLQILSALITNPSS....SNAEASQLLNSILKIIAKNL.......................ehslRWLQRAEPVRHDIEPISKALKP...NL.GW.....ERRGAS.GHTELESwTATPGG..GLVASIKHTIsTL
  833-  994 (158.97/111.98)	AMNTmpASYTHRQILIGMKILGAKRLLNAIIDEVKT.....QTQAGNGSVVLDIATSLICAPDPvsfdSSTSASIDLLSGVSSSPQPLqrrlnlrealkvetdkmpkvhktdtfhAETVIR..LFRRVEAQLAQQQSllpHDDG.LGGLNAVMGDGvMGDAGLG.AAEQQD...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.79|      27|      33|     130|     156|       3
---------------------------------------------------------------------------
  130-  156 (42.42/30.99)	EMMLYRLAKTVSSGAAPKSAQEAVEIL
  164-  190 (46.37/34.63)	EMVTTAMGQGAHAMLNPESHAEEIGML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.80|      44|     204|     346|     392|       5
---------------------------------------------------------------------------
  346-  392 (67.48/41.96)	IDLIL.....TSF.....DVLANATFRNEGQQTTTILRSFlvnKLPLLLSTLATSLY
  546-  599 (68.31/36.18)	LDVMLlfdkpTSFlqpicDLLDNWHYDEDQGEYQPVYEEF...GSILLLVVLFTHRY
---------------------------------------------------------------------------




































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 MDP20011 with Med5 domain of Kingdom Fungi
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