<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 MDP04052

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDNRISPTEALRGSIQYWNDFISKCLTKRLDAGPFEDYVKLVFAKHQLTPDIIADFFLQPQKSNCVSPDPRIPPYISVLTQLRYIDAASILRALYRYSSLHSLTPQQAQESAKEQGQDQEQAQTQQDGETKEEHRRSSSQTLWKSSSWLEEVMFYHVIRLVVEGTALKDSRTALELMHIISKWMSLFSAASNPLGADMLAGGLQDPQVRHEMEVSRAAFVPLLLRLVDNPALVKAISHPAVKEPRKQFSESLTSFVQIFQPVPQFVEKLEMFRTEVLAPLDPIDKNNQAANAAMDDLLDSTVGLDSLVIPDLPISNTRAGLYIYLGASLVGRPLIDDHAMFSYLNNRYQGNTQQSAIDLILASFDLLANAVFRNEGPRDAHLLRSFLINKVPLILAQLCPPGFSTSAEFCITEALSQVDTSVFPTASLMFDESRNNNPYTESVREEFCSACALHGLIEREHVERILGESSMSYEPSQEKYSKEKLVQSCLSDPDKIQALIRDMDKMDGNVGAVCQALVELLRQLCNSKETMSLKILCSQLVQKPQSLDVLLLFERLPVVLEPICQLLDGWRYDEDQGEYQPVYEEFGAILLLVLAFAYRYSLSPADIGIVSPDSNVAKIISRAHISVSWDQISEQENGHLSGWIHGLFDSDAGGLGDDLMSSCPPAEFYLLIATLFENIVIAYSQGALTDEALRSGIEYLVDTFLLPSLIPAIRFLSDYLWIEQREQKSIIKILQLILLPTSISGEASTMLAAVKGIVAKPLEHSLRAYQRQDPKNQDIEPLLRALKDSLPLSRRTGAAEHQELEMWATSSSSGLSGATKHLIQALVQWCIHPEMTAMPTSYTHRQVIATLKIVGACRLLRVMLEEIRQQMLTGSGSVVYDVVTALVCAPNVSNDIPPTSVLLDEGGNIPPPLQRRLTLREVLKMEAEDYRKLHKKDAELAEIMVRLYRRVEAQMVLPPPPMLQAADMQLDLAGDAASLVGDSMAAAAGVQGDGTLSMDGVGGLDMGMGGVSSDLGLGAAGNNGGLDASAEADLFGSLDTDMDVFDGWGGMDLGGP
Length1056
PositionTail
OrganismTrichoderma harzianum (Hypocrea lixii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.07
Grand average of hydropathy-0.071
Instability index46.89
Isoelectric point4.83
Molecular weight116488.85
Publications
PubMed=26067977

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

>MDP04052
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.06|      24|      57|     815|     841|       1
---------------------------------------------------------------------------
  815-  841 (36.31/39.26)	LSGATKHL......................IQALVqwCiHPEMT..AMPTS
  853-  900 (26.75/15.98)	IVGACRLLrvmleeirqqmltgsgsvvydvVTALV..C.APNVSndIPPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.28|      34|      37|     981|    1016|       2
---------------------------------------------------------------------------
  962-  981 (33.57/14.31)	MLQAADMQ..............LD..L....A.GDAAS.LVG
  984- 1017 (63.76/44.55)	MAAAAGVQG..DGTLSMDGVGGLD..M....GMGGVSSDLGL
 1018- 1054 (31.95/16.18)	..GAAGNNGglDASAEADLFGSLDtdMdvfdGWGGM..DLG.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.59|      14|      49|     659|     672|       3
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  659-  672 (28.64/16.67)	LMSSCPPA.EF...YLLI
  705-  722 (18.95/ 8.59)	LLPSLIPAiRFlsdYLWI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.22|      16|      37|     400|     415|       4
---------------------------------------------------------------------------
  400-  415 (30.42/20.35)	PPGFSTSAEFCITEAL
  438-  453 (30.80/20.70)	PYTESVREEFCSACAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.03|      32|      38|     489|     525|       5
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  489-  522 (45.04/46.51)	CLSDPDKIQALIRdMDKMDGNVGAVCQaLVELLR
  540-  571 (53.98/33.53)	LVQKPQSLDVLLL.FERLPVVLEPICQ.LLDGWR
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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 MDP04052 with Med5 domain of Kingdom Fungi
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