<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 MDP12360

Description pre-mRNA-processing protein 40C-like
SequenceMVQTDQTMKPLQNRRVDIAHEMGAMTFPPSFMQSFSQAGHMSSGSSTAAFPTSHLGSPNIRMPHAPQFQVPAGVPRSPVTPGPPGLGPVIPSSSNMTATASPGGPSLSLRPNGPPVPVLANPPVQQQIYSPYLSASPMAPTLQGPWLQPSPVTTMLRPPFPSHPAGFAVPFPLSATGAPLSSATLPDTRPPGVASVATPPGVPTTATQSIPALGLQPELPPGVDSAKHANDADTKEGAPTSEQLEAWTAHRTETGAIYYYNSLTGESTYEKPAGFSGEPAKVAAQPTPVSWEKLAGTDWALVTTNDGQKYYYNTKTKLSSWQIPNDVTELKKKHDADALQAQSMSMPNANALTEKGSSPISLSIPAVNTGGRDATTLRSSVVPGSSALDLVKKKLMDAGATTAVSSPAPASSGVISSELNGSEALESTVRAPQKENSKEKSKEANDNGNMSESSSDSEDDESVPTKEDCIIQFKEMLKERGVAPFSKWEKELPKIVFDPRFKAIPSYSARKALFEHYVKTRADEERKEKRAAQKAAVEGFKHLLEEAKEVYLVTKRSLVLSDDINEDTDYQSFKKKWGHDRRFESLDRKDREVLLNERY
Length599
PositionUnknown
OrganismNicotiana tabacum (Common tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.06
Grand average of hydropathy-0.568
Instability index56.05
Isoelectric point6.31
Molecular weight64399.51
Publications
PubMed=24807620

Function

Annotated function 
GO - Cellular Component
nucleus	GO:0005634	IBA:GO_Central

GO - Biological Function
RNA polymerase binding	GO:0070063	IBA:GO_Central
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP12360
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     179.73|      33|      34|      84|     116|       1
---------------------------------------------------------------------------
   84-  116 (63.22/25.63)	PGLG..PVIPS..SSNMTATASP....GGP..SLS...LRPNGPP.V
  117-  152 (35.91/11.59)	PVLAnpPVQQQiySPYL..SASP....MAP..TLQgpwLQP..SP.V
  154-  193 (45.04/16.28)	TMLR..PPFPS..HPAGFAVPFPlsatGAPlsSAT...LPDTRPPgV
  200-  221 (35.56/11.40)	PG......VPT......TATQSI......P..ALG...LQPELPP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     177.50|      48|      49|     225|     272|       2
---------------------------------------------------------------------------
  225-  272 (86.22/53.99)	SAKHANDADT................KEGAPTS.EQLEA..W.TAHRTETGAIYYYNSLTGESTYEKP
  276-  324 (70.65/42.82)	SGEPAKVA.A................Q.PTPVSwEKLAGtdW.ALVTTNDGQKYYYNTKTKLSSWQIP
  329-  375 (20.62/ 6.89)	ELKKKHDADAlqaqsmsmpnanalteKGSSPIS.LSIPA..VnTGGRDAT..................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.58|      21|      23|     407|     427|       3
---------------------------------------------------------------------------
  407-  427 (34.92/21.70)	PAPASSGVISSELNGSEAL.ES
  432-  453 (29.66/17.22)	PQKENSKEKSKEANDNGNMsES
---------------------------------------------------------------------------




































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 MDP12360 with Med35 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGATTAVSSPAPASSGVISSELNGSEALESTVRAPQKENSKEKSKEANDNGNMSESSSDSEDDESVPT
2) ELKKKHDADALQAQSMSMPNANALTEKGSSPISLSIPAVNTGGRDATTLRSSVVP
3) MVQTDQTMKPLQNRRVDIAHEMGAMTFPPSFMQSFSQAGHMSSGSSTAAFPTSHLGSPNIRMPHAPQFQVPAGVPRSPVTPGPPGLGPVIPSSSNMTATASPGGPSLSLRPNGPPVPVLANPP
4) TGAPLSSATLPDTRPPGVASVATPPGVPTTATQSIPALGLQPELPPGVDSAKHANDADTKEGAPTSEQLEAW
398
329
1
176
465
383
123
247










Molecular Recognition Features






MoRF SequenceStartStop




1) IYSPYL
128
133