<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 MDP00953

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMAVTKWMTLIRQCLLNRRSVKEFAQILQRHQGDINGTQVVTALVNCRESFCAKGDPLISLYLEHVGTTGLAKISESLVALIHQWNQSKNPKTTDMLDCCTQTLQDMTMIIVSPKFKMDMSEAQICLNLSSKWLIALSQHLSSSVEETPTQELNYVLEALAFLLASLAATEAGLAALSQHELPKDATSNVQSSVQRAIGQCLTLYPNMSPQLVERLNAVVKHINMIGDGSIQPDESMQASEMQALQFQVSIPQSQIVASRAATICYLDTLLSTGATIDDSVMLNFLSSRHQSEHQSMFIDLFIAAFDSLRVHVSSKDSSMRVEQCQIFIQSKLPVLLSMISASSFNSFNTDEAITDAWHQVSPFLISQDVLTIGYKCLHTCSLHHLLSPQIIHQLIGSEDVTASFSKGLYSKDDLVTQVISNHSRGPKLIEELVRSDGSAGSLSQAIVEVIQHYCQSKETQYLKDLANAILRKPSAINCISLFIRPAYWLGPLCTLIDDWRWDEIHGEAQPIYDEFGAVFLLILVSRARLGLRKSDIGIRRKDGFLADYLERENSEYTLSELSKDRESKLSEWVNALYLADGLSDELFANCSPHDYYLLIPTLLRQSVTAHQYGKLSSESLNAGLDYLLESFLLPSLISALNWVGRYLNNNLALAGVVLKVLTKSPSSADSQDIHRTILATAAPTLRRRLEAAQSQDPNIQSAISIFSAYQEFSFVPERESLDGTIDILGSLQSSITCLLTPVTSLDLENQSLSRYSPSLMRLALRCHGADATLRSLIEVLLQLSNSHNFLFALDLISTIICIAEPKLRDVLRIRYNMLSTVLRKGDALSAEAVVRLYRQVETYTTILTAQDMNLDQFAFAHQLSNIDTANANLDAVVSGQGDGLDLQAEQGHEADGIDQVLGEAAALGNLDDGMGGNDVDLSFDALYGPQSTDMNLEDLNDLDLDMF
Length947
PositionTail
OrganismExophiala aquamarina CBS 119918
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Chaetothyriomycetidae> Chaetothyriales> Herpotrichiellaceae> Exophiala.
Aromaticity0.07
Grand average of hydropathy0.002
Instability index45.56
Isoelectric point4.93
Molecular weight104690.97
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

>MDP00953
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     162.76|      53|     121|     634|     689|       1
---------------------------------------------------------------------------
  634-  689 (80.37/58.51)	PSLIS.ALNWVGryLNNNL.ALAGVVLKvLTKSPSSADSQDIHRTILATAAPTLRRRL
  757-  811 (82.38/49.47)	PSLMRlALRCHG..ADATLrSLIEVLLQ.LSNSHNFLFALDLISTIICIAEPKLRDVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.23|      25|      37|     384|     408|       3
---------------------------------------------------------------------------
  384-  408 (42.04/27.10)	HLLSPQIIHQLIGSEDVTASFSKGL
  422-  446 (41.19/26.41)	HSRGPKLIEELVRSDGSAGSLSQAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.81|      37|     127|     171|     217|       4
---------------------------------------------------------------------------
  133-  169 (56.80/32.35)	LIALSQH.....LSSSVEETPTQELNYVLEALAFLLASLAAT
  173-  214 (56.01/43.17)	LAALSQHelpkdATSNVQSSVQRAIGQCLTLYPNMSPQLVER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.16|      20|      23|     898|     920|       6
---------------------------------------------------------------------------
  898-  920 (29.38/26.82)	DQVLGEAAALGNLDDgmgGNDVD
  924-  943 (35.78/22.43)	DALYGPQSTDMNLED...LNDLD
---------------------------------------------------------------------------




































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 MDP00953 with Med5 domain of Kingdom Fungi
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