<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
Unable to open file!