<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 MDP28607

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMHNLLDLLQEAIGKKLPQKSFILLSTLCTPNTDDDIQQIFHSSLTDEQIHLFVDWAVSSQSNCHMFWSNLSKAEEGIQVRFLQEVRREFNHRDYVYHEFTKYVFEYLNNHTSSTDIVNEMIHLLGLMKETDSADFVELFKLIKKTGYNLQQTTRGVLTPEQLNHLAELNLIESESFESTPEVGVSLDVTNKLDTYLEIKRKLWIYQITRDFNKLQLYNDTSKFIRHFKTCVVNQANEHIAQVLMQSFPFDVEGFHLFNVKNFISTKVPQILAELHVGSDQLAVPDQIKQLLVPKPEPDLKRLRDLLNTDPELTSFDESGLVDYIAELSKRGSQEKVTETVLDSMREFIRTKQLEKLNRILLALMSNIEMINIILFHTNMSLLHILIDYVDFETFTTGSDDDFQDVYSYCSVCVLSILLIIEVFQIDLSKIEINSYSVGFVNNFFYRLGDNLTNNTPLEKDEDDLTIIGNYNNLVTEWINALFDDSNDGLSDELMKSLSIKQIYKLMPVIYKQAIVARKLGKINNAILSNGLDYLSQPFLFPVISCLVKWMARDSTDTELYKEVMLELVKPNIGQSTNPMSYAILNICGNDVLKLVDDYRIRKVIHYRGKGVEDVSNVWEKVKYSSNFDQFDLLLHNKRDTIHYLIRESYTFQETKDENSKLFINLLVSMSILDSIETKDDVEYWKQELNKTSQTQTEGGNGNGNGNGEEYFSCTLDYHFSSIFNDDVDKDNDSDELLNSNNDNDNDQVDIEMKAPSSEEMRTAQRQLVLRDSLLSHFRAIKDKTNHTNLFYKTVKILTDKILEELDNWN
Length809
PositionTail
OrganismCandida parapsilosis (strain CDC 317 / ATCC MYA-4646) (Yeast) (Monilia parapsilosis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Candida/Lodderomyces clade> Candida.
Aromaticity0.10
Grand average of hydropathy-0.343
Instability index40.70
Isoelectric point4.85
Molecular weight93716.95
Publications
PubMed=19465905
PubMed=22192698

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

>MDP28607
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     142.04|      45|     118|       1|      51|       1
---------------------------------------------------------------------------
    1-   51 (68.37/56.33)	MHNLLDLLQEAigkklPQKSFILLSTLcTPNTDDDIQQIFHSSLTDEQI.HL
  120-  165 (73.68/44.57)	MIHLLGLMKET.....DSADFVELFKL.IKKTGYNLQQTTRGVLTPEQLnHL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.84|      14|      17|     322|     335|       4
---------------------------------------------------------------------------
  322-  335 (22.64/15.99)	DYIAELSKRGSQEK
  342-  355 (23.20/16.57)	DSMREFIRTKQLEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.82|      10|      14|     267|     276|       7
---------------------------------------------------------------------------
  267-  276 (17.00/10.70)	VPQILAELHV
  283-  292 (16.83/10.52)	VPDQIKQLLV
---------------------------------------------------------------------------




































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 MDP28607 with Med5 domain of Kingdom Fungi
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