<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 MDP29214

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMASAAEAERRKQEMAKDEDRSLAECAQECSQDITAISKQILEFMLDRERSRRGSKEKLIELIVLFEQKLDRMKQLVLISPEYREREELISQLQKCVENRDEIIQSYADNLRGAEQVLTKGIFQATKKLKNLAESEANPVHSEDVIKFAHQISKSYSVAAPQYWQQGDTSRPFPTEHELRQSSISSVKNPIGSLPTQSNLIVPSRSSQFPPRLTSSPATYAASPRTSISFSHIIEQKRGEGKPTMLRVSTASQSPRGRMNQGGGTPSGSSMGGSTPWRGQEISPYPHKKTEASPKRSTHPTSTSKQIGSYNSVVSSDFTLDYPSHSLAVLILSTPKMFDVAYKRWVREETSKAGSFDAFTEEMSSPISEFIDSRLEKVQEELSSMPFEIIHDHSMWPNRKPKILMCTCGHVAGAAYYYRQSDPTLSETKDGKKWDPKPAAANLKFIGLSLHSDFGGHFAFRSVLIFPHISLPSSFKEREPVAVLHTIDEIKDALEKFNYAWKDSRFRDCGNPKERYSSTQMEYFGKPPSERWEVIRHWIEDEQKGKDEGDKA
Length551
PositionMiddle
OrganismPristionchus pacificus (Parasitic nematode)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Diplogasteromorpha> Diplogasteroidea> Neodiplogasteridae> Pristionchus.
Aromaticity0.08
Grand average of hydropathy-0.713
Instability index65.24
Isoelectric point8.05
Molecular weight62313.44
Publications
PubMed=18806794

Function

Annotated function 
GO - Cellular Component
cytoplasm	GO:0005737	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
cyanocobalamin reductase (cyanide-eliminating) activity	GO:0033787	IBA:GO_Central
demethylase activity	GO:0032451	IBA:GO_Central
FAD binding	GO:0071949	IBA:GO_Central
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
cobalamin metabolic process	GO:0009235	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29214
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.23|      35|     180|     138|     175|       2
---------------------------------------------------------------------------
  138-  175 (54.86/44.83)	PVHSEDVIKFAhqISKSYSVAAPQyWQQGDTSR.....PFPTE
  322-  361 (55.36/33.43)	PSHSLAVLILS..TPKMFDVAYKR.WVREETSKagsfdAFTEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.63|      31|     185|     263|     293|       3
---------------------------------------------------------------------------
  263-  293 (60.00/27.67)	GTPSGSSMGGSTPWRGQEISPY...PHKKTEASP
  446-  479 (52.63/23.56)	GLSLHSDFGGHFAFRSVLIFPHislPSSFKEREP
---------------------------------------------------------------------------




































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 MDP29214 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PRTSISFSHIIEQKRGEGKPTMLRVSTASQSPRGRMNQGGGTPSGSSMGGSTPWRGQEISPYPHKKTEASPKRSTHPTSTSKQIG
2) WQQGDTSRPFPTEHELRQSSISSVKNPIGSLPTQSNLIVPSRSSQFPPRLTSSPATYAA
223
163
307
221










Molecular Recognition Features






MoRF SequenceStartStop




1) EVIRHWIEDEQKGK
532
545