<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 MDP29974

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMQDTFHQSLNNIVKILKSAPGSITIQNIQRLSNVYKFETFIENIDDKIKRLSIAGKILVIDIDYEELANKTKDQTKFELKDVKLILANNNNDFKYTSSVNGENILNNVLAKYSNFAQFDKALETLAVFDQYSNDDFDLFHYYIQIYEDLKKLTKIKVELNVNDEFAIVVEDQYKITLVNDERLCIVKNDHNGDQWNQQHDTKINDVGIKIEILNGFRIPISRNTLLQNNLVFDQNVKPISFFNNDDVFKSKTQSNFTLQGFQFLESEVLSISEVSTNDIKSVIITLEELIKFNKLNKVISELKEKFELIDKFANLEEDVRLNDFISENQDSIEVEQKFITISLKQTSIEIRSDNSDYNFTIPWSNEDGFDQGLEKLKRLLTA
Length382
PositionMiddle
OrganismWickerhamomyces ciferrii (strain F-60-10 / ATCC 14091 / CBS 111 / JCM 3599 / NBRC 0793 / NRRL Y-1031) (Yeast) (Pichia ciferrii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Wickerhamomyces.
Aromaticity0.10
Grand average of hydropathy-0.409
Instability index32.39
Isoelectric point4.79
Molecular weight44380.50
Publications
PubMed=23193139

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

>MDP29974
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.26|      14|      15|     157|     171|       1
---------------------------------------------------------------------------
  157-  171 (19.99/14.20)	VELnVNDE.FAIVVED
  175-  189 (20.27/ 9.44)	ITL.VNDErLCIVKND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.95|      21|     101|     220|     258|       2
---------------------------------------------------------------------------
  119-  140 (32.63/ 6.41)	DKALETLAVFDQ......YSNDDfDLFH
  223-  249 (32.32/39.04)	NTLLQNNLVFDQnvkpisFFNND.DVFK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.10|      19|      25|     294|     312|       3
---------------------------------------------------------------------------
  294-  312 (31.19/16.72)	KLNKVISELKEKFELIDKF
  320-  338 (32.90/17.99)	RLNDFISENQDSIEVEQKF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.57|      20|      79|      10|      37|       5
---------------------------------------------------------------------------
   10-   29 (33.20/31.46)	NNIVKILK..SAPGSITIQNIQ
   42-   63 (27.37/ 9.29)	ENIDDKIKrlSIAGKILVIDID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.59|       9|      16|      85|      95|       8
---------------------------------------------------------------------------
   85-   95 (13.21/11.58)	ILanNNNDFKY
  104-  112 (16.39/ 7.40)	IL..NNVLAKY
---------------------------------------------------------------------------




































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 MDP29974 with Med1 domain of Kingdom Fungi
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