<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 MDP25780

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMPPVDPELALSLDEVSQILLKRPGAVGIKGIKRLSNLYGFETFTDIIDPVNKASAIQSPGPLGMNEKELSTIERLTIAGKIILIDIDFQEQKVSDVSLSLAIVTKLISGKDKGKLNFIDKACEPNIEKLLLQNLNESTLDDFNRNLRLLSLLDKLSNSVSLNDQLNRETGSGNDELSHERKYDLFNYMHILSFNLHRVYEYQVSHLDELDYKSPFLSDRNDISCFVREGLGGIGKVELNVGGRCGVFLKFWEDHRFVTQQLKQRVPNDEIHNDNFLLHFKIKEVDNEYCIKNIDTRIVYKEKWFEEGRWLVDSGKNDNDIVKFSVTLVAELLPTVWVPYDLLYKWNIDDIDEAEPDVKNNRLDALFDHFNKFHHKRKYRLNEKGDQKLEISMMSPCRFVKLHKLSHRVEQIQSIVDDLRTWCVISSFIRNVLSSCESEEETRTNVKSELNVDDVKLVEFVSEKPIIVNNRRDDEFRLSFSPSMDDLDHMLTTVEFKENNVYKKLQFSIIRGILDDVKPLTDNIDESTVKIKAWKVFRTEQILRSFQVIKNS
Length551
PositionMiddle
OrganismKomagataella phaffii (strain GS115 / ATCC 20864) (Yeast) (Pichia pastoris)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Komagataella.
Aromaticity0.09
Grand average of hydropathy-0.412
Instability index37.61
Isoelectric point5.49
Molecular weight63893.09
Publications
PubMed=19465926

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

>MDP25780
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.30|      21|      33|      12|      35|       1
---------------------------------------------------------------------------
   12-   35 (27.64/24.82)	LDEV...SQIllKRPGAVGIKGiKRLS
   47-   70 (33.66/18.97)	IDPVnkaSAI..QSPGPLGMNE.KELS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.21|      14|      30|     368|     382|       2
---------------------------------------------------------------------------
  368-  382 (21.95/23.47)	HFNKFhHKRKYRLNE
  397-  410 (24.26/18.45)	RFVKL.HKLSHRVEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.58|      15|      30|     215|     230|       3
---------------------------------------------------------------------------
  215-  230 (23.36/20.38)	FLSDRNDiSCFVREGL
  247-  261 (29.22/20.21)	FLKFWED.HRFVTQQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.78|      14|      32|     492|     505|       4
---------------------------------------------------------------------------
  492-  505 (23.48/15.40)	TVEFKENNVYKKLQ
  527-  540 (24.31/16.18)	TVKIKAWKVFRTEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.30|      31|      41|     136|     166|       5
---------------------------------------------------------------------------
  115-  142 (22.96/10.51)	......LNFIDKAcePNIEKLL.LQ.N.lnE...STLDDF
  143-  176 (44.68/27.41)	NRNLRLLSLLDKL..SNSVSLN.DQLNretG...SGNDEL
  179-  209 (37.67/21.95)	ERKYDLFNYMHIL......SFNlHRVY...EyqvSHLDEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.34|      26|      33|     415|     442|       6
---------------------------------------------------------------------------
  415-  442 (40.09/28.04)	VDDLRTWCVISSfiRNVLSSCESEEETR
  451-  476 (42.25/23.41)	VDDVKLVEFVSE..KPIIVNNRRDDEFR
---------------------------------------------------------------------------




































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 MDP25780 with Med1 domain of Kingdom Fungi
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