<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 MDP28636

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMASEDVYLSKLNEIIELFQNYKPGRINLDNITKLCQTLGLESFIDDIDTNISRLSTASKIIVVDIDFDKSLGKVKDVKLVLASNFDNFNYFTDKSLLLNSVNGTNNTNLKEEQTENNILLNSLTNYADLNEFYQNLKYIYLLDTYSCIDLDSNQAKSKSSGNTTVINSGDIISTTNYAVSATDNVSSLQISSTGNMKPNSSPNANANLDVNNAHTATSPVPAQNIDKNDCKLDLFKYYTELADYVRNYFISNNSDFTVITNLRDIFGIYIIWNDDFKNPIARIYLEKSKESKNRLFEFVYLPGDDKWSNEDFEKYTIGVSLVMEIMGETENQTGKHNSIWFPKESISDDLILQSSFTDIIKENIDSNDNNMLNILFKNIQSDNNLSINDYLIFSGKCRLVNDFTTSLINISKFDIGNDHLDLMLEILNWIKWSKMVLTPVFEIISRDNNGSTDDFSSYEKANDSNIDENINLQKLKMKTIRSTRRRSSSLAKRPSIVEASILKDEGLQQFNLHEIMSQPVIEDEKIDGLDYVEESASENPLHNDSNENANEDIEMEDAQGMDFNTEPMLKIENNNKKIIKS
Length581
PositionMiddle
OrganismTetrapisispora phaffii (strain ATCC 24235 / CBS 4417 / NBRC 1672 / NRRL Y-8282 / UCD 70-5) (Yeast) (Fabospora phaffii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Tetrapisispora.
Aromaticity0.09
Grand average of hydropathy-0.492
Instability index42.32
Isoelectric point4.53
Molecular weight66116.93
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
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

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









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28636
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.83|      17|      17|     195|     211|       1
---------------------------------------------------------------------------
  195-  211 (30.57/20.10)	NMKPNSSPNANANLDVN
  212-  228 (30.27/19.83)	NAHTATSPVPAQNIDKN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.50|      16|      17|      38|      53|       2
---------------------------------------------------------------------------
   28-   43 (25.41/11.65)	LDNITKLCQTLGLESF
   44-   59 (25.09/11.43)	IDDIDTNISRLSTASK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.50|      17|      17|     343|     359|       3
---------------------------------------------------------------------------
  343-  359 (28.82/15.27)	KESI..SDDLILQSSFTDI
  361-  379 (24.68/11.98)	KENIdsNDNNMLNILFKNI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     207.13|      65|     142|     245|     315|       4
---------------------------------------------------------------------------
  245-  315 (101.12/76.46)	VRNYFISNN.....SDFTviTNLRDIfGIYIIWND..DFKNPIARiYLEKSKESKNRLFEFVylPGDDKWSNEDFEKY
  387-  458 (106.01/60.63)	INDYLIFSGkcrlvNDFT..TSLINI.SKFDIGNDhlDLMLEILN.WIKWSKMVLTPVFEII..SRDNNGSTDDFSSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.40|      14|      17|      76|      89|       5
---------------------------------------------------------------------------
   76-   89 (24.23/12.26)	DVKLVLAS..NFDNFN
   93-  108 (19.18/ 8.30)	DKSLLLNSvnGTNNTN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.85|      18|      18|     502|     519|       6
---------------------------------------------------------------------------
  502-  519 (31.60/23.85)	LKDEGLQQFN.LHEIMSQ.P
  521-  540 (20.26/12.54)	IEDEKIDGLDyVEESASEnP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.63|      14|      82|     462|     478|       7
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  462-  478 (16.65/17.29)	NDSNidENINlQKLKMK
  543-  556 (25.99/13.27)	NDSN..ENAN.EDIEME
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.85|      12|      18|     163|     174|       8
---------------------------------------------------------------------------
  163-  174 (20.11/13.63)	TTVINSGDIIST
  182-  193 (19.75/13.24)	TDNVSSLQISST
---------------------------------------------------------------------------




































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 MDP28636 with Med1 domain of Kingdom Fungi
Unable to open file!