<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 MDP27655

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMEEQSVYQLALKCAEREIPAAEFLNLYKEFFNERFSKNMSENDDSEINGSNMEEVATTLSLNFEELLNTGNSYLLVDYIITVLFVNYNSDLVRVAFPKLITVENNTMLIHFCSKLCAFLSQLSDKLVTDQLCKDLPNVLIPSVLNADYRNSSNELLVSFAKLLQRLLKFITTPITIQKDNAREHSHALVARLSHINKLLHKRLGQMIDSKLIFKDSKVNVFFKDPAHEYIHSPSLTSPQFISSPMSINKTPMSTTSTSKYKDMRLLRYYKNIWLNNKIHNWEPINSDFLSRYAAISPTLFQEGIPSSQSSDTLLTDLVETSFTCFAQFVSNKQYHQVNSNLNLLERKWVIFISKHLPLLILKHSSKNPHVITKALDNIDDKVIKAIRTYYSEKDDIKSRNEDLFDDYSTTSLDIRHDFMKSLIMLNLLTPNVINDYLREDETIDVKTLVTSDDLIINSSQGIKESIKDIPAFVSNEINSLEMEMLNDSSTGLTNGLYQVLTTFESVAPTKQKDIAIGIVNLLKESIGNSNYDKITKLCALLYFNFGHSFTTILSFVDPLTITELLIKFVDDSWGTSSNLKTEMSDDNSYESNSKALSIGWGLLLLIVLSNNYGISLPDVALQSSTISSTNTFSIQFVSKLPEILDTYTIDERNERDPNTQSKSHKLVQSWLSDLFVNGAISDELSQNTQTGQLSTLIPFIIKQVLLAAELGFVSDPSNLLTGFEYFLQPYMLVGLIKVVYWLEQFLSGLKNRTYPEALIQTMFTLLNSILNPSTLNEESRTFHNAILRLNAVPLLKVVRKFRSKNEPNYGVYYSESESSATVGPLIDKLVSVLNMGSIYNVDSRIINTETMYSQTKPIGYGKFLILDENPINKIMTNQMNSFWNLHSSTFYNLDYLYELIDLITPKKFFFDVFQTLKYKSNTYGVPVMRNKISTTETEHVMDYFFYFLVLYDVRSPDDAAKFINFMDTEGHMDTSPVQSEVQLKTENPLKTETSQDDDFDMLFGENDNETSAQEPEEDIQILTVEPKVNENNEMAILKRNSFGRIIHELKVAEEEAYKSGGIPKEKYEETCHYHEKYLALLKGCVF
Length1086
PositionTail
OrganismNaumovozyma castellii (strain ATCC 76901 / CBS 4309 / NBRC 1992 / NRRL Y-12630) (Yeast) (Saccharomyces castellii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Naumovozyma.
Aromaticity0.10
Grand average of hydropathy-0.219
Instability index36.76
Isoelectric point5.12
Molecular weight124067.72
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

>MDP27655
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      62.62|      14|      58|     453|     466|       1
---------------------------------------------------------------------------
  453-  466 (22.27/12.69)	DLIINSSQGIKESI
  483-  496 (20.42/11.01)	EMLNDSSTGLTNGL
  513-  526 (19.92/10.55)	DIAIGIVNLLKESI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     405.53|     110|     180|     120|     251|       2
---------------------------------------------------------------------------
  120-  235 (165.16/119.66)	SQLSDKLVTDQLCKDLPN....VLIPSVLNADYRNSSNELL.VSFAKLLQR.LLKFITT..P...ITIQKDNAREHSHALVARLSHINKLLHKRLGQMIDSKLIFKDSKVNVFfkDpahEYiHSPSL
  307-  412 (158.69/96.34)	SQSSDTLLTD.LVETSFT....CFAQFVSNKQYHQVNSNL......NLLERkWVIFISKhlP...LLILKHSSK.NPHVITKALDNIDDKVIKAIRTYYSEKDDIKSRNEDLF..D...DY.STTSL
  747-  830 (81.69/40.33)	SGLKNRTYPEALIQTMFTllnsILNPSTLNEESRTFHNAILrLNAVPLLKV.VRKFRSKnePnygV....YYSESESSATVGPL..IDKLV....................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.77|      18|     307|     609|     631|       4
---------------------------------------------------------------------------
  609-  631 (23.19/33.73)	SNNYGIslPdvaLQSSTISSTNT
  920-  937 (33.58/25.71)	SNTYGV..P...VMRNKISTTET
---------------------------------------------------------------------------




































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 MDP27655 with Med5 domain of Kingdom Fungi
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