<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 MDP19341

Description "RNA polymerase II, Rpb (Fragment)"
SequenceLETSPLTNFEVIDFLKSKGASKHPTDLVPSELKVYEYLVETAANNQKKQNILEFKEKSEKYGLARAKVINIINTRPTTQVELYPLSESRAWYPKKLSCIVTSPRDPYKIIEDEDYEHLGHDLIKELCGMVAEVFPSPPTETASKEGNIETKVTNETNCEIGNKEKNGGGGINEGKAPRVQFVRMDKMVDTLNNAYQEFVGAAANVLEAKESSVAQKTLSTDAALENFKQKWELFRVACDQAEEFVESVKQRIGSECLVDEATGSVAGKSGGSGNTLAAAATGLPRISAVRLEQMSKAVRWLVIELQHGSGSSAGSAAHSHPSAAPFDARFTEDSAQ
Length336
PositionTail
OrganismTrema orientale (Charcoal tree) (Celtis orientalis)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Cannabaceae> Trema.
Aromaticity0.07
Grand average of hydropathy-0.461
Instability index40.58
Isoelectric point5.39
Molecular weight36685.77
Publications









Function






Annotated function


GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro
RNA polymerase complex	GO:0030880	IEA:InterPro

GO - Biological Function
DNA-directed 5'-3' RNA polymerase activity	GO:0003899	IEA:UniProtKB-KW
nucleotide binding	GO:0000166	IEA:InterPro

GO - Biological Process
cold acclimation	GO:0009631	IEA:InterPro
DNA-templated transcription, initiation	GO:0006352	IEA:InterPro
leaf senescence	GO:0010150	IEA:InterPro
regulation of transcription, DNA-templated	GO:0006355	IEA:InterPro
root development	GO:0048364	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP19341
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     352.86|     101|     106|      99|     203|       1
---------------------------------------------------------------------------
   29-   97 (70.61/42.21)	............................................PSELKVYEYLVETAANNQKKQNILEfKEKSEKYGLARAKV....INIINTRPTTQ...VElyPLSESRAWYPKKLS
   99-  203 (158.08/119.11)	IVTSPRD..PYKII.EDEDYEHLGH..DLIKELCGMvAEVFpspPTETASKEGNIETKVTNETNCEIGN.KEKNGGGGINEGKA....PRVQFVRMDKM...VD..TLNNAYQEFVGAAA
  205-  313 (124.17/81.83)	VLEAKESsvAQKTLsTDAALENFKQkwELFRVACDQ.AEEF....VESVKQRIGSECLV.DEATGSVAG...KSGGSGNTLAAAatglPRISAVRLEQMskaVR..WLVIELQHGSGSSA
---------------------------------------------------------------------------




































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 MDP19341 with Med32 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PTETASKEGNIETKVTNETNCEIGNKEKNGGGGINEGKA
138
176










Molecular Recognition Features






MoRF SequenceStartStop




1) APFDARFTEDSAQ
324
336