<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 MDP27079

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMEAAKRQQQQQQQQQQLQLQQQQQLQQQQQQQQQQHQLLQQQLLKRQIKDTVTNNIFEFHMKCKSLFEAFNQITGGTQQQQQLQQQQQQNLQIQQPLQRLVDVDKIYQKSLKQLEQHLIYQKEIVDIQKEIIEKDKVIMEMATTLKSLEKTLEEDIEEYGAKKTKGDEREVYPEDLISYAHKISGTTSAPFGYQPHLALIPLYKPPAPQEEMMRASVLFQKLPLNLLRFYGLAEKDLVVPLATPPSMSSTSAKEGDTNISPALLASSSTTLDTIPPIGSMEKDLLGQSRDSNNSNNTETQLPTLQPIVQITTPPTRQPQLIPATIDLDLNPDMDDSDDDDDDDEESDEASENEEVEWD
Length358
PositionMiddle
OrganismCavenderia fasciculata (strain SH3) (Slime mold) (Dictyostelium fasciculatum)
KingdomAmoebozoa
LineageEukaryota> Amoebozoa> Evosea> Eumycetozoa> Dictyostelia> Acytosteliales> Cavenderiaceae> Cavenderia.
Aromaticity0.04
Grand average of hydropathy-0.867
Instability index64.80
Isoelectric point4.54
Molecular weight41006.33
Publications
PubMed=21757610

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

>MDP27079
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.85|      17|      18|       7|      23|       1
---------------------------------------------------------------------------
    7-   23 (36.71/12.72)	QQQQQQQQQQLQLQQQQ
   26-   42 (36.67/12.70)	QQQQQQQQQQHQLLQQQ
   79-   95 (34.46/11.53)	QQQQLQQQQQQNLQIQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.27|      42|      44|     249|     292|       3
---------------------------------------------------------------------------
  249-  292 (61.41/45.57)	STSAKEGDTNISPALLASSSTT..LDTIPpiGSMEKDLLGQSRDSN
  294-  337 (64.86/41.34)	SNNTETQLPTLQPIVQITTPPTrqPQLIP..ATIDLDLNPDMDDSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.86|      16|      38|     191|     206|       4
---------------------------------------------------------------------------
  191-  206 (31.59/20.46)	FGYQPHLALIPLYKPP
  230-  245 (28.27/17.61)	YGLAEKDLVVPLATPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.57|      12|      18|     154|     166|       6
---------------------------------------------------------------------------
  154-  166 (16.88/16.50)	EDIEEYgAKKTKG
  174-  185 (21.69/14.78)	EDLISY.AHKISG
---------------------------------------------------------------------------




































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 MDP27079 with Med4 domain of Kingdom Amoebozoa
Unable to open file!