<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 MDP06254

Description Mediator of RNA polymerase II transcription subunit 6 (Fragment)
SequenceLKKLNNVISNIFFLSKKMNVHGSSQTTNPLHIQWNPPWNPNWLSASNVLDCFTNTLNPFYDPNCLNEQVRIQRLSSEILSRVHGVEYILLHAAEPLFVIRKQYRQPNQNVTPLEDYYIIGGTVYQAPDLSSVFNSRLQSAISNVRSAFEEAKSYYRFNTSEGYYFQYKNEPTVEKGDDKRVSVFQKYRMDMLLNELSEKFPPALSLEESNENTQDGKATSNKKATEAPAETVQSDKKPKPCCACPETRKARDECIVEKGPDSCKELIEAHRHCRLSIVKSELTNLDISIKQLIRFIRYFEGSNSDLERLCRNCRDEIFSMERLLNDYKKMMMLNKVTESDAEEFRFVTTYRIELENNLQSLREAIIVASQNADNYERALLFSTCNEDKNIEILRKRRINEKKRNVSQARQLQSSLTSLLKKMNDTVHESELTLNKLAASSTALRDATYEMHGMSSLIHTSGKLLKKYKRRQFSDRFIIFICFGIFLLSAAYIVQIRLWK
Length499
PositionHead
OrganismTrichinella zimbabwensis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.09
Grand average of hydropathy-0.546
Instability index50.12
Isoelectric point8.87
Molecular weight57888.37
Publications









Function






Annotated function


GO - Cellular Component
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
mediator complex	GO:0016592	IEA:InterPro
mitochondrial intermembrane space	GO:0005758	IEA:UniProtKB-SubCell

GO - Biological Function
copper chaperone activity	GO:0016531	IEA:InterPro
copper ion binding	GO:0005507	IEA:InterPro
SNAP receptor activity	GO:0005484	IEA:InterPro
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro
retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum	GO:0006890	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06254
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.60|      11|      18|     244|     254|       1
---------------------------------------------------------------------------
  244-  254 (21.78/15.52)	CPETRKARDEC
  263-  273 (21.83/15.57)	CKELIEAHRHC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.04|      13|      18|      95|     107|       2
---------------------------------------------------------------------------
   95-  107 (25.22/17.18)	PL...FVIRKQ.YRQPN
  112-  128 (15.82/ 8.24)	PLedyYIIGGTvYQAPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.48|      14|     138|     184|     198|       3
---------------------------------------------------------------------------
  165-  178 (24.73/17.84)	FQ.YKNEPTVEKGDD
  184-  198 (19.75/18.87)	FQkYRMDMLLNELSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.09|      22|     403|       9|      30|       4
---------------------------------------------------------------------------
    9-   30 (41.22/30.35)	SNIFFLSKKMN..VHGSSQTTNPL
  413-  436 (32.87/22.79)	SSLTSLLKKMNdtVHESELTLNKL
---------------------------------------------------------------------------




































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 MDP06254 with Med6 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ALSLEESNENTQDGKATSNKKATEAPAETV
203
232










Molecular Recognition Features






MoRF SequenceStartStop




NANANA