<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
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