<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 MDP13819

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSESSAKRIKLAIEVAEENAIKDITDDGEEIVEEKLSNSEKLDQITSRINFEALLDSSKSENDKNLEYKQNDNDTDMEKLNMEANKQQNQIQVQPLEKIKFNLYHAQQEIKLSLDIVNRLIMTSTEKGRNDKRERMEFLSKQKSSLFNQQQLQQQQLQTPDMMFDPKKNESNIRLANIHNPKLSLKQQIEEYQLKLSAKREHLRHASRILLEEHENILNILNVSQAFYNEQSETLRPNNWIIQSKNRVNRTGMLQRSLYVDYSYIHAGSRFKEMGIAQISQNRHTIANAALNKEVDSNEEKIKLLLPHKKKKVVTVEIFSPSAPKSSHRDVWATWDIEVINNKILRQLLESQITIYHNELYNRLINDAQNSYLEKKVKFSENMISLPLSSDKRLIFRIETKKDDDEPVDIKDLTSQELSQAFLELFLQEKLRNIHRKNIQKNNFFTSTINENNDQNINILSPSVSTISKSNQNIVNTNINGIKNEGNSNKKSENEKQKLNVLKENFVEQTYELILYKECIEYIKSKLDHFVKTIVSGKIPISVHFEKIFNDKTENTLETETQILITFFNNYTVKFGIKFPTKVVFYLNRQDTNDILNCHEVKNGFIKFLIQELKIICLKVICNEAKNSGITGNEKWEVDDIVGNYLKGIINFQEKIGVFEVITHSNIDPLELSFDIKCHFNGIKKSHTIHLNTNHQHHHNSSSSVNSNHQKFNYFSFFINDIQKYL
Length726
PositionHead
OrganismNeocallimastix californiae
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Chytridiomycota> Chytridiomycota incertae sedis> Neocallimastigomycetes> Neocallimastigales> Neocallimastigaceae> Neocallimastix.
Aromaticity0.08
Grand average of hydropathy-0.685
Instability index44.08
Isoelectric point7.36
Molecular weight84767.03
Publications









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

>MDP13819
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     385.42|      96|     272|      85|     184|       1
---------------------------------------------------------------------------
   85-  181 (159.02/99.07)	NKQQNQIQV.........................QPLE.KIKFnLYHAQQE.IKLSLD.....IVNRLIMTST..EKGRNDKRE.RMEFLSKQKSS.....LFNQQQLQ...QQQLQTP.DMMFDPKKNESNIRLANIHNP
  362-  462 (123.59/71.29)	NRLINDAQN.........................SYLEkKVKF....SENM.ISLPLS.....SDKRLIFRIE..TKKDDDEPV.DIKDLTSQELSqafleLFLQEKLRnihRKNIQ.K.NNFFTSTINENNDQNINILSP
  476-  601 (102.82/58.32)	NTNINGIK.negnsnkksenekqklnvlkenfveQTYE.LI...LYKECIEyIKSKLDhfvktIVSGKIPISVhfEKIFNDKTEnTLETETQILIT.....FFNNYTV....KFGIKFPtKVVFYLNRQDTN.DILNCHEV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.99|      17|      19|     620|     638|       3
---------------------------------------------------------------------------
  620-  638 (26.91/22.68)	VICNEAKnsGITG.NEKWEV
  641-  658 (25.08/14.08)	IVGNYLK..GIINfQEKIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.41|      17|      29|     201|     219|       4
---------------------------------------------------------------------------
  201-  219 (24.59/19.52)	EHLRHASRILleEHENILN
  233-  249 (30.82/18.12)	ETLRPNNWII..QSKNRVN
---------------------------------------------------------------------------




































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 MDP13819 with Med17 domain of Kingdom Fungi
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