<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 MDP31958

Description Isoform 2 of Pre-mRNA-processing protein 40A
SequenceMANNPPQSSGTQFRPMVPGQQGQHFVPAASQPFHPYGHVPPNVQSQPPQYSQPIQQQQLFPVRPGQPVHITSSSQAVSVPYIQTNKILTSGSTQPQPNAPPMTGFATSGPPFSSPYTFVPSSYPQQQPTSLVQPNSQMHVAGVPPAANTWPVPVNQSTSLVSPVQQTGQQTPVAVSTDPGNLTPQSASDWQEHTSADGRKYYYNKRTKQSNWEKPLELMTPLERADASTVWKEFTTPEGKKYYYNKVTKESKWTIPEDLKLAREQAQLASEKTSLSEAGSTPLSHHAASSSDLAVSTVTSVVPSTSSALTGHSSSPIQAGLAVPVTRPPSVAPVTPTSGAISDTEATTIKGDNLSSRGADDSNDGATAQNNEAENKEMSVNGKANLSPAGDKANVEEPMVYATKQEAKAAFKSLLESVNVHSDWTWEQTLKEIVHDKRYGALRTLGERKQAFNEYLGQRKKVEAEERRRRQKKAREEFVKMLEECEELSSSLKWSKAMSLFENDQRFKAVDRPRDREDLFDNYIVELERKEREKAAEEHRQYMADYRKFLETCDYIKAGTQWRKIQDRLEDDDRCSCLEKIDRLIGFEEYILDLEKEEEELKRVEKEHVRRAERKNRDAFRTLLEEHVAAGILTAKTYWLDYCIELKDLPQYQAVASNTSGSTPKDLFEDVTEELEKQYHEDKSYVKDAMKSRKISMVSSWLFEDFKSAISEDLSTQQISDINLKLIYDDLVGRVKEKEEKEARKLQRLAEEFTNLLHTFKEITVASNWEDSKQLVEESQEYRSIGDESVSQGLFEEYITSLQEKAKEKERKRDEEKVRKEKERDEKEKRKDKDKERREKEREREKEKGKERSKREESDGETAMDVSEGHKDEKRKGKDRDRKHRRRHHNNSDEDVSSDRDDRDESKKSSRKHGNDRKKSRKHANSPESESENRHKRQKKESSRRSGNDELEDGEVGE
Length926
PositionUnknown
OrganismArabidopsis thaliana (Mouse-ear cress)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Camelineae> Arabidopsis.
Aromaticity0.06
Grand average of hydropathy-1.152
Instability index56.86
Isoelectric point6.09
Molecular weight109380.64
Publications
PubMed=11130712
PubMed=27862469
PubMed=19423640
PubMed=17560376
PubMed=19467629
PubMed=19376835
PubMed=22021418

Function

Annotated function Binds the phosphorylated C-terminal domain (CTD) of the largest subunit of RNA polymerase II and functions as a scaffold for RNA processing machineries (Probable). May be involved in pre-mRNA splicing (Probable). 
ECO:0000305	PubMed:19467629
GO - Cellular Component
cytosol	GO:0005829	IDA:TAIR
mediator complex	GO:0016592	IDA:UniProtKB
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

>MDP31958
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     202.48|      30|      30|     805|     834|       1
---------------------------------------------------------------------------
  466-  495 (21.57/ 6.38)	......ER......................RR..RQKKARE.....EfvkmlEECEELSSSLKWS
  568-  618 (26.51/ 9.63)	RLED.DDRcsclekidrligfeeyildlekEE..EELK.RV.....E.....KEHVRRAERKNRD
  805-  834 (48.94/24.39)	KAKE.KER......................KR..DEEKVRK.....E.....KERDEKEKRKDKD
  837-  859 (35.17/15.33)	R.RE.KER......................ER..E.....K.....E.....KGK.ERSKREESD
  862-  890 (38.92/17.80)	TAMDvSEG......................HK..D.EK.RK.....G.....KDRDRKHRRRHHN
  905-  941 (31.37/12.83)	ESKK.SSR......................KHgnDRKKSRKhanspE.....SESENRHKRQKKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.26|      40|      40|     187|     226|       2
---------------------------------------------------------------------------
  190-  229 (78.49/41.14)	WQEHTSADGRKYYYNKRTKQSNWEKPLELMTPLERAD.AST
  231-  271 (70.77/36.46)	WKEFTTPEGKKYYYNKVTKESKWTIPEDLKLAREQAQlASE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     192.09|      32|      32|     109|     140|       3
---------------------------------------------------------------------------
    5-   31 (36.07/16.88)	..PPQSSGT....QFRP.MVPGQQGQHFVPAASQ...
   35-   53 (23.10/ 8.24)	.......PY....GHVPPNV.QSQPPQYSQP......
   74-  107 (38.67/18.61)	S.QAVSVPYiqtnKILTSGSTQPQPNA..PPMTGFAT
  109-  140 (63.49/35.14)	G.PPFSSPY....TFVPSSYPQQQPTSLVQPNSQMHV
  142-  166 (30.75/13.33)	GvPPAANTW....P.VPV....NQSTSLVSPVQQ...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.68|      19|      23|     273|     293|       4
---------------------------------------------------------------------------
  273-  293 (28.60/21.15)	TSLSEAGSTPLSHHaaSSSDL
  299-  317 (33.08/18.59)	TSVVPSTSSALTGH..SSSPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.25|      23|      23|     681|     703|       5
---------------------------------------------------------------------------
  681-  703 (38.74/26.47)	ED.KSYVKDAMKSRKI..SMVS.SWLF
  704-  728 (21.96/11.52)	EDfKSAISEDLSTQQI..SDINlKLIY
  771-  795 (27.55/16.51)	DS.KQLVEESQEYRSIgdESVS.QGLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.79|      28|      65|     436|     465|       6
---------------------------------------------------------------------------
  436-  465 (39.89/25.91)	DKRYGALRTLGERKQAFNEYLgqRKKVEAE
  504-  526 (34.99/16.79)	DQRFKAVDRPRDREDLFDNYI.......VE
  527-  551 (30.91/14.06)	LERKEREKAAEEHRQYMADY...RKFLE..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.50|      10|      31|     353|     363|       7
---------------------------------------------------------------------------
  353-  363 (14.50/12.01)	NLSSRGaDDSN
  385-  394 (19.00/10.69)	NLSPAG.DKAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.28|      13|      33|     366|     378|       8
---------------------------------------------------------------------------
  366-  378 (21.91/15.23)	ATAQNNEAENKEM
  402-  414 (20.37/13.59)	ATKQEAKAAFKSL
---------------------------------------------------------------------------




































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 MDP31958 with Med35 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KAKEKERKRDEEKVRKEKERDEKEKRKDKDKERREKEREREKEKGKERSKREESDGETAMDVSEGHKDEKRKGKDRDRKHRRRHHNNSDEDVSSDRDDRDESKKSSRKHGNDRKKSRKHANSPESESENRHKRQKKESSRRSGNDELEDGEVGE
2) MANNPPQSSGTQFRPMVPGQQGQHFVPAASQPFHPYGHVPPNVQSQPPQYSQPIQQQQLFPVRPGQPVHITSSSQA
3) SSPYTFVPSSYPQQQPTSLVQPNSQMHVAGVPPAANTWPVPVNQSTSLVSPVQQTGQQTPVAVSTDPGNLTPQSASDWQEHTSADGRKYYYNKR
4) TIPEDLKLAREQAQLASEKTSLSEAGSTPLSHHAASSSDLAVSTVTSVVPSTSSALTGHSSSPIQAGLAVPVTRPPSVAPVTPTSGAISDTEATTIKGDNLSSRGADDSNDGATAQNNEAENKEMSVNGKANLSPAGDKANVEEPMVYA
5) YIQTNKILTSGSTQPQPNAPPMTGFATSGPP
805
1
113
254
81
958
76
206
402
111










Molecular Recognition Features






MoRF SequenceStartStop




1) GKKYYY
239
244