<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 MDP29881

Description PGD1-like protein
SequenceMDSIIAADVKLEDLEVALAKNENETRDNVCKEISEARDEILPLRLQFNEFIQTMASIDKDGPKQGSRMARYLQVRDKILQLNGRFQSLSSHLEALQPLFSTVPEYLKTADNKDRSFQLLEPLSTYNQNGTVAGPAAAVVNTSHSTAASTPTTTTPHANPIAHAHAHSLSQPNSMATMQQHSLAGKRGHKGSSSIGTPNAPNSTVAAATAATKKPRKPRQTKKAKAQAQAQAQAQAQAQAQAQVYSQQSAVQTPITASMAAALPNPTPNMINSVSPTNVMGTPLTNMMSPMANGYSWGGQTQGGGQPGMPQFNNNGNGTNPNPSTNSNNTPLQSQLNLNNLTPANILNMSMNTDFQQQQQPQQPQQPQQQLPQQPQQQYNMNMGMNTMNNNGKELDSLDLNNLELGGLNMDFL
Length412
PositionTail
OrganismSaccharomyces kudriavzevii (strain ATCC MYA-4449 / AS 2.2408 / CBS 8840 / NBRC 1802 / NCYC 2889) (Yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.04
Grand average of hydropathy-0.714
Instability index42.45
Isoelectric point7.86
Molecular weight44447.05
Publications
PubMed=12775844
PubMed=22384314

Function

Annotated function 
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
RNA polymerase II activating transcription factor binding	GO:0001102	IEA:EnsemblFungi
RNA polymerase II core promoter sequence-specific DNA binding	GO:0000979	IEA:EnsemblFungi
RNA polymerase II repressing transcription factor binding	GO:0001103	IEA:EnsemblFungi
transcription coactivator activity	GO:0003713	IEA:EnsemblFungi

GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi
RNA polymerase II preinitiation complex assembly	GO:0051123	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29881
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     139.07|      34|      74|     307|     340|       1
---------------------------------------------------------------------------
  307-  340 (64.55/20.86)	GMPQFNNNGNGTNP.NPSTNSNNTPLQSQLNLNNL
  347-  375 (34.21/ 8.12)	NMSMNTDFQQQQQPqQPQQPQQQLPQQPQ......
  377-  402 (40.31/10.69)	...QYNMN.MGMN....TMNNNGKELDS.LDLNNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.98|      16|      35|      37|      71|       2
---------------------------------------------------------------------------
   37-   56 (23.60/49.86)	RDEILPLRLQFnefiQTMAS
   75-   90 (28.38/ 8.53)	RDKILQLNGRF....QSLSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     122.52|      19|      19|     148|     166|       3
---------------------------------------------------------------------------
  148-  166 (30.81/14.98)	STPTT.TTPHA..NPIAHAHAH
  169-  188 (19.93/ 6.93)	SQPNSmATMQQ..HSLAGKRGH
  190-  210 (19.79/ 6.83)	GSSSI.GTPNApnSTVAAATAA
  214-  232 (26.88/12.08)	PRKPR.QTKKA..KAQAQAQAQ
  246-  264 (25.09/10.75)	QQSAV.QTPIT..ASMAAALPN
---------------------------------------------------------------------------




































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 MDP29881 with Med3 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GTVAGPAAAVVNTSHSTAASTPTTTTPHANPIAHAHAHSLSQPNSMATMQQHSLAGKRGHKGSSSIGTPNAPNSTVAAATAATKKPRKPRQTKKAKAQAQAQAQAQAQAQAQAQVYSQQSAVQTPITASMAAALPNPTPNMINSVSPTNVMGTPLTNMMSPMANGYSWGGQTQGGGQPGMPQFNNNGNGTNPNPSTNSNNTPLQSQLNLNNLTPANILNMSMNTDFQQQQQPQQPQQPQQQLPQQPQQQYNMNMGMNTMNNNGKELDSLDLNNLELGGLNMDF
129
411










Molecular Recognition Features






MoRF SequenceStartStop




1) KKPRKPRQTKKAKA
212
225