<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 MDP28626

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMQSDSLYKLAINCAERHISAVDFVNLYKEFYNEQYGSQIENEENPEKSSTKALETAEVITTNIVKLLNGGNHLVLVDYVVQILFVNYNPELVKSTMSKIYSVNDEKMLVHFYSKSSSFFAKLSDSLIIERLVKDLKNCIIPNILSMEVNIMTNALVVSVAKFLQVILRFLSSPIVIDSAIDRNNISSFLKKLSQSNKLLHKKVSQTMDCKIIFKDTKPVFQNPATTPYSTSPSITSPHFMQSPINYSKQSLLMENNVNKYKDSKLLRYYKNLWLNNKIHKWKIMSPDCLTNYASICTELFVDGPSSSTLTDEVLIDLIETSFISFAQFVSNKQYHQSNAYLTLLERKWVIYISKQLPLLIIENSSGNKNIIDIAMNKIDDKVTKAIKSYYLDKNDQKNRNEDLFDDSPSSTLDIRHEFIKSLIALKFQDSNAVNKYLSEDQSLDVDSLPVNDNLTITNAQEQLETIVNIYDFIINSLDVVSPDAFGDGINDSNNPLRQLLLNFDTIAPTKQRELSNSICEIINESVETMNFMRLATLSSLLSMNYCHSLTSLLSYVEPGTLLKPLVTFIDIKWDSFTKNVDMNSNESENAISRMAFNWVSLFIVTIGKMYHLNIEDYISLTPENKRSHAYSIQLLSEIVNINDDFTFESDLGKSVSKQNADLEVQKWFQALFVNGALSDNMTQNIDPKEIINLIPFMFKQVILGVESEIIDDISKVIDGFAFFLHPALIVGMIKIVFWLGNYLETLKENSVPEVILENVLKLLNCIISPDSLNVDSMLFHTVLLRLNSVKLIKSSRNFKVQSQSNYGIYSSESQSPPVVESLILKLTYVLNISPFYDIDSKITSTESQYSQKQPAFGKFLLTNEQPLNKIISNQINSFWSLHSSTYYNIDYLNILIELVSPKKFLEDVLHTLGNKLTNYGAPGSRKKDMNDGWEQVYDYVFYFMVLYDISSRREASEMINWLENNGKENVTEIEQKVETVPDTVMKFQTSQDDDFDVLFGENEQSVQSQDDMNGVEQDIGNTLPVDYTVMESKVPVLKHHKFGRVLKDKKLAYDEALKRKEITPEQHEVACHYYNKYLSVVKSSIF
Length1086
PositionTail
OrganismTetrapisispora phaffii (strain ATCC 24235 / CBS 4417 / NBRC 1672 / NRRL Y-8282 / UCD 70-5) (Yeast) (Fabospora phaffii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Tetrapisispora.
Aromaticity0.10
Grand average of hydropathy-0.197
Instability index51.83
Isoelectric point5.19
Molecular weight124194.26
Publications
PubMed=22123960

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:EnsemblFungi

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
histone H3 acetylation	GO:0043966	IEA:EnsemblFungi
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblFungi
transcription by RNA polymerase II	GO:0006366	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28626
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     171.19|      41|      64|     741|     781|       1
---------------------------------------------------------------------------
  741-  766 (30.77/14.76)	......................................N.YLETLKENSVPEVILENVLKLLNCI
  767-  830 (51.47/30.16)	ISPDSLNVDSMLFHTvllrlnsvklikssrnfkvqsqsN.YGIYSSESQSPPVVESLILKLTYVL
  832-  881 (51.29/30.02)	ISP.FYDIDSKITST...........esqysqkqpafgK.FLLT.NEQPLNKII.SNQINSFWSL
  882-  912 (37.65/19.88)	HSSTYYNI...............................dYLNILIELVSPKKFLEDVLHTL...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.50|      25|      68|     116|     140|       2
---------------------------------------------------------------------------
  116-  140 (41.96/27.98)	SSFFAKLSDS.LIIERLVKDLKNCII
  186-  211 (38.53/25.08)	SSFLKKLSQSnKLLHKKVSQTMDCKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.87|      38|      68|     565|     603|       3
---------------------------------------------------------------------------
  565-  603 (60.36/46.81)	LVTFIDIKwDSFTKNVDMNSNESENAISRMAFNWV.SLFI
  635-  673 (55.13/36.01)	LSEIVNIN.DDFTFESDLGKSVSKQNADLEVQKWFqALFV
  679-  703 (30.38/15.74)	.........DNMTQNID..PKEIINLIPFM.FKQV.IL..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     321.17|     106|     175|     215|     338|       4
---------------------------------------------------------------------------
  215-  338 (164.71/115.11)	DTKpvfqNPATTPYSTSPSITSP..H.FMQSPINYSKQSllmENNVNKY..KDSKL....LRYYKNLWLNNKIHKWKIMspdcLTNYASICTEL.......FVDGPSSStltDEVLIDLIetsfISFAQFVSNKQYHQSN
  395-  516 (156.47/77.24)	DQK....NRNEDLFDDSPSSTLDirHeFIKSLIALKFQD...SNAVNKYlsEDQSLdvdsLPVNDNLTITNAQEQLETI....VNIYDFIINSLdvvspdaFGDGINDS...NNPLRQLL....LNFDTIAPTKQRELSN
---------------------------------------------------------------------------




































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 MDP28626 with Med5 domain of Kingdom Fungi
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