<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 MDP00524

Description Pre-mRNA-processing protein 40A isoform 3
SequenceMANNSQPSSAQPHWPPAVGSLGPQSYGSPLSSQFRPVVPMQQGQHFVPAASQQFRPVGQVPSSNVGMPAVQNQQMQFSQPMQQFPPRPNQPGLSAPSAQPMHVPFGQTNRPLTSGSPQSHQTAPPLNSHMPGLGAPGMPPSSSYSYVPSSFGQPQNNVSASSQFQPTSQVHASVAPVAGQPWLSSGNQSVSLAIPIQQTGQQPPLISSADTAANAPIHTPPSASDWQEHTSADGRRYYYNKKTRQSSWEKPLELMTPIERADASTVWKEFTTPEGRKYYYNKVTKQSKWTIPEELKLAREQAQVVASQGAPSDTGVASQAPVAGAVSSAEMPAAAIPVSSNTSQASSPVSVTPVAAVANPSPTLVSGSTVVPVSQSAATNASEVQSPAVAVTPLPAVSSGGSTTPVTSVNANTTMIRSLESTASQDSVHFTNGASAQDIEEAKKGMATAGKVNVTPVEEKVPDDEPLVYANKQEAKNAFKSLLESANVQSDWTWEQTMREIINDKRYGALKTLGERKQAFNEYLGQRKKLEAEERRMRQKKAREEFTKMLEESKELTSSMRWSKAQSLFENDERFKAVERARDREDLFENYIVELERKERENAAEEKRRNIAEYRKFLESCDFIKVQHFQKRIQANSQWRKVQDRLEDDERCSRLEKIDRLVMFQDYIHDLEKEEEEKKKMQKEQLRRAERKNRDAFRKLMDEHVVDGTLTAKTYWRDYCLKVKDLPPYLAVASNTSGSTPKDLFEDVVEELEKQYQQDKTHIKDAMKSGKISMVSTWTVEDFKAAISEDVGSLPISDINLKLVYEELLKSAKEKEEKEAKKRQRLADDFTKLLHTYKEITASSDWEDSRPLFEESQEYRSIAEESLRREIFEEYIAYLQEKAKEKERKREEEKAKKEKEREEKEKRKEKERKEKEREREREKGKERTKKDETDSENLDISDSHGHKEDKKKEKEKDRKHRKRHQSGGDDGSSDKDDREESKKSRRHGSDRKKSRKHAHSPESDNESRHKKHKRDHRDGSRRNSGYEELEDGEVGEDGEIQ
Length1041
PositionUnknown
OrganismTheobroma cacao (Cacao) (Cocoa)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Byttnerioideae> Theobroma.
Aromaticity0.06
Grand average of hydropathy-1.089
Instability index59.01
Isoelectric point7.15
Molecular weight117717.31
Publications
PubMed=23731509

Function

Annotated function 
GO - Cellular Component
cytosol	GO:0005829	IEA:EnsemblPlants
mediator complex	GO:0016592	IEA:EnsemblPlants
U1 snRNP	GO:0005685	IBA:GO_Central
U2-type prespliceosome	GO:0071004	IBA:GO_Central

GO - Biological Function
RNA binding	GO:0003723	IBA:GO_Central

GO - Biological Process
mRNA cis splicing, via spliceosome	GO:0045292	IEA:InterPro
mRNA splicing, via spliceosome	GO:0000398	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP00524
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     318.87|      38|      38|     216|     253|       1
---------------------------------------------------------------------------
    7-   36 (30.55/14.84)	...........PSSAqPHW.....PPAVGSLGPQSY...GSPLSSQFRP..
   39-   82 (41.43/23.38)	PMqqgqHF...VPAA.SQQfrpvgQVPSSNVGMPAVQNQ...QMQFSQPMQ
  100-  127 (45.32/26.43)	PM....HV...PFGQ.TN......RPLTSGSP.......QSHQTA..PPLN
  136-  156 (36.30/19.35)	P.....GM...PPSS.S.Y.....S...........Y....VPSSFGQPQN
  169-  205 (37.16/20.02)	QV....HAsvaPVAG.QPW........LSSGNQSVSLAIPIQQTGQQPPL.
  216-  253 (69.86/45.71)	PI....HT...PPSA.SDW.....QEHTSADGRRYYYNKKTRQSSWEKPLE
  257-  294 (58.25/36.59)	PI....ER...ADAS.TVW.....KEFTTPEGRKYYYNKVTKQSKWTIPEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      67.12|      16|      16|     897|     912|       2
---------------------------------------------------------------------------
  893-  908 (26.29/11.87)	EKAKKEKERE.EKEKRK
  909-  925 (21.60/ 8.43)	EKERKEKERErEREKGK
  955-  968 (19.23/ 6.69)	EKDRKHRKRH.QSG..G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.24|      16|      16|     317|     332|       3
---------------------------------------------------------------------------
  317-  332 (26.84/17.23)	ASQAPVAGAVSSAEMP
  333-  348 (21.28/11.83)	AAAIPVSSNTSQASSP
  401-  415 (16.12/ 6.84)	GSTTPVTSVNANTTM.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     468.18|      64|      65|     471|     534|       4
---------------------------------------------------------------------------
  419-  465 (38.48/17.00)	................L.ES...TA..........SQDsvHFT....NGASAQDIEEAKK.G.M..ATAG.K.VNVTPVE.......EKVPDDE
  471-  534 (98.09/54.10)	NKQEAK..N..AFKSLL.ES...AN..........VQS..DWT....WEQTMREIINDKRYGAL..KTLG.E.RKQAFNEYLG..QRKKLEAEE
  538-  599 (76.36/40.58)	RQKKAR..E..EFTKMLeES...KE..........LTS..SMR....WSKAQSLFENDERFKAV..ERAR.D.REDLFENYIV..E...LERKE
  602-  678 (66.93/34.71)	NAAEEKrrNiaEYRKFL.ES...CDfikvqhfqkrIQA..NSQ....WRKVQDRLEDDERCSRL..EKI..D.RLVMFQDYIH..DLEKEEEEK
  690-  753 (61.64/31.42)	ERKN.R..D..AFRKLM.DE...HV..........VDG..TLTaktyWRDYCLKVKDLPPYLAVasNTSG.StPKDLFEDV........VEELE
  759-  819 (65.15/33.60)	DKTHIK..D..AMKS...GK...IS..........MVS..TWT....VED.FKAAISED.VGSL..PISDiN.LKLVYEELLK..SAKEKEEKE
  822-  887 (61.52/31.34)	KRQRLA..D..DFTKLL.HTykeIT..........ASS..DWE....DSRPLFE..ESQEYRSI..AEES.L.RREIFEEYIAylQEKAKEKE.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.61|      22|      78|     927|     948|       5
---------------------------------------------------------------------------
  927-  948 (35.28/18.42)	RTKKDETDSENLDISDSHGHKE
  980- 1001 (32.81/16.61)	ESKKSRRHGSDRKKSRKHAHSP
 1008- 1028 (34.52/17.87)	RHKKHKRDHRDGSRRNS.GYEE
---------------------------------------------------------------------------




































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 MDP00524 with Med35 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AKEKERKREEEKAKKEKEREEKEKRKEKERKEKEREREREKGKERTKKDETDSENLDISDSHGHKEDKKKEKEKDRKHRKRHQSGGDDGSSDKDDREESKKSRRHGSDRKKSRKHAHSPESDNESRHKKHKRDHRDGSRRNSGYEELEDGEVGEDGEIQ
2) GNQSVSLAIPIQQTGQQPPLISSADTAANAPIHTPPSASDWQEHTSADGRRYYYNKK
3) MANNSQPSSAQPHWPPAVGSLGPQSYGSPLSSQFRPVVPMQQGQHFVPAASQQFRPVGQVPSSNVGMPAVQNQQMQFSQPMQQFPPRPNQPGLSAPSAQPMHVPFGQTNRPLTSGSPQSHQTAPPLNSHMPGLGAPGMPPSSSYSYVPSSFGQPQNNVSASSQFQPTSQVHASVAPVAGQPW
4) SAEMPAAAIPVSSNTSQASSPVSVTPVAAVA
5) SPTLVSGSTVVPVSQSAATNASEVQSPAVAVTPLPAVSSGGSTTPVTSVNANTTMIRSLESTASQDSVHFTNGASAQDIEEAKKGMATAGKVNVTPVEEKVPDDEPLVYAN
883
186
1
328
361
1041
242
182
358
471










Molecular Recognition Features






MoRF SequenceStartStop




1) DSHGHKEDKKKEKEKDRKHRKRHQS
2) EELED
3) ESRHKKHKRDHR
4) GRKYYYN
5) GRRYYYN
6) KKSRRH
7) RKKSRKHAHS
942
1027
1006
275
234
982
991
966
1031
1017
281
240
987
1000