<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 MDP10005

Description Putative mediator of RNA polymerase II transcription subunit 26b
SequenceMAAPPQPLASLDYWRCFFSGARASIFDAIDAAIRVAAADHPDALRARRDAIAERLYTAIVALPATQEAPGQSTPGQPALLLPEGAASVPSLCSSDRAEVVNNDGGGAPLTNSDDDVVAEAFRIKAALSNAQDKSEAELLELLGRLGQLEFTVDAIRATGIGMDVRPLRKHGSKQIRQLVRSLIEGWTATVNEWMNNGDPVVDHTPQSVDASCLDEEEGGLPSPPMDEAALFAAPCTSIELSEFFDEMDDDGNIRADVKDGGQRNPASQESVSKQSPTVQQYDPEQNWKLDQSATKQLRPNEAFGWQTTQRSNSGAQAKASSAAFGPGRPQASQMGRPRCSEVKPEQQQQQQRDVSVAQRRPKPTVPKPPPTEHDEYPVRAKQQQQLAKDGKLEATKRKLQEGYQEFNNAKKQRTIQMVDPQDLPKQGSRNLALSGKPRNSSNIRNRLAVRR
Length451
PositionUnknown
OrganismZea mays (Maize)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Andropogonodae> Andropogoneae> Tripsacinae> Zea.
Aromaticity0.05
Grand average of hydropathy-0.736
Instability index57.06
Isoelectric point5.67
Molecular weight49198.21
Publications
PubMed=19965430

Function

Annotated function 
GO - Cellular Component
nucleus	GO:0005634	IEA:UniProtKB-SubCell

GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP10005
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.10|      11|      17|      83|      99|       1
---------------------------------------------------------------------------
   83-   95 (12.01/20.54)	EGAASvPsLCSSD
  103-  113 (21.10/ 6.90)	DGGGA.P.LTNSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     131.08|      43|     254|     130|     175|       2
---------------------------------------------------------------------------
  130-  175 (64.22/58.35)	AQD.KSEAELLELlgRLGQLEFTvDAIRATGIGM.DVRPLRKHGSKQI
  387-  431 (66.86/48.40)	AKDgKLEATKRKL..QEGYQEFN.NAKKQRTIQMvDPQDLPKQGSRNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.42|      13|      19|     287|     304|       4
---------------------------------------------------------------------------
  279-  291 (24.53/ 8.45)	QQYDPEQ..NWKLDQ
  295-  309 (18.89/19.11)	KQLRPNEafGWQTTQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.71|      17|      21|     326|     344|       5
---------------------------------------------------------------------------
  328-  344 (32.56/18.35)	RPQASQMG......RPRCSEVKP
  346-  368 (26.15/ 7.59)	QQQQQQRDvsvaqrRPKPTVPKP
---------------------------------------------------------------------------




































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 MDP10005 with Med26 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SEFFDEMDDDGNIRADVKDGGQRNPASQESVSKQSPTVQQYDPEQNWKLDQSATKQLRPNEAFGWQTTQRSNSGAQAKASSAAFGPGRPQASQMGRPRCSEVKPEQQQQQQRDVSVAQRRPKPTVPKPPPTEHDEYPVRAKQQQQLAKDGKLEATKRKLQEGYQEFNNAKKQRTIQMVDPQDLPKQGSRNLALSGKPRNSSNIRNRLAVRR
2) WMNNGDPVVDHTPQSVDASCLDEEEGGLPSPPMDEAALF
241
193
451
231










Molecular Recognition Features






MoRF SequenceStartStop




1) HDEYPVRAKQQ
2) QRDVSVAQRRPKP
373
351
383
363