<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 MDP28506

Description Pre-mRNA-processing protein 40C
SequenceMSQPPLSAAETTPTSMPNSSSSSSSTPASSPAPPVSYAPHQNVNSSANSQQQQQASHSGMNPNSVVNPPFHTHTPRPAAPSFSYNFPQSAPPAFTGNQHGQSNTNMPDSVTQDFSKVPSASINLHSAPAPTSISAMAPRSDPNYRPTTLWMPTAPTFPIHPVMPGTPGTPGPPGLTKPVMIPSNPAAPSTTGFPSAAVPRQNMPTASDPNASHRGGLPYPPIPSMVAPPQGYWLQPPQMSGVLRPPFHQYPAAFPGPFPFPARGGALPAVPVPDSQPPGVTPVGAASISAPSSSNHLLRGTSGVQTEVISAHTDDKHKLNATVTQNEDAANDQLDAWTAHKTEAGIVYYYNALTGQSTYDKPAGFKGEAHQVSVQPTPVSMVDLPGTDWQLVSTSDGKKYYYNNRTKTSCWQIPNEVAELKKKQDSDVTKDHPTPVPNTNVLSERGSGMVALNAPAITTGGRDAVASKPFIVQSSPSALDLIKKKLQESGAPVTSSSIPTPSVQPGSESNGSKATDSTAKSLQNDNSKDKQKDANGDANVSDTSSDSEDEDSGPSKEECINQFKEMLKERGVAPFSKWEKELPKIVFDPRFKAIPSYSARRSLFEHYVKNRAEEERKEKRAAQKAAIEGFKQLLDEASEDIDDKTDSHTFRKKWGNDPRFEALDRKEREHLLNERVLPLKKATEEKAQAMRDAAADSFKSMLKEQGEITFNSRWSRVKESLRDDPRYKSVKHEDRELLFNEYISELKAVEHAAERETRAKREEQDKLRERERELRKRKEREEHEMERVRLKIRRKEAVTSFQALLVERIKDPMASWTESKPKLEKDPQGRATNSDLDSADMEKLFRDHVKMLQERRARDFRALLAEFLTSEAASQETDDGKTVLNSWSTAKRLIKSDPRYNKVPSEDREALWRRYAEDMIRRQKSSHDSKEEKHTDARGRKSLESSKNPLESGRSHERR
Length959
PositionUnknown
OrganismMedicago truncatula (Barrel medic) (Medicago tribuloides)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> Hologalegina> IRL clade> Trifolieae> Medicago.
Aromaticity0.06
Grand average of hydropathy-0.928
Instability index55.12
Isoelectric point8.61
Molecular weight106012.63
Publications
PubMed=22089132
PubMed=24767513

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

>MDP28506
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     455.79|      66|      66|     615|     680|       1
---------------------------------------------------------------------------
  515-  577 (67.78/33.35)	TDS.T.AK.SLQ.......ND..........NSKDKQKD...ANgdANVSDTS.....sdsEDEDSGPSKEECINQFKEMLKE......RGVAPFSK
  578-  644 (84.21/43.09)	WEKEL..P.KIV.......FDPRFKA....IPSYSARRS...LF..EHYVKNR.....aeeERKEKRAAQKAAIEGFKQLLDE......ASEDIDDK
  645-  708 (89.77/46.38)	TDSHTFRK.KWG.......NDPRFEA....LDRKEREHL...LN..ERVLPLK.....katEEKA.QAMRDAAADSFKSMLKE......QGE.I...
  709-  773 (47.65/21.42)	....TFNS.RWSrvkeslrDDPRYKS....VKHEDRELL...FN..EYISELKavehaaerETRAKREEQD.......KLRER......ERE.....
  774-  812 (41.71/17.90)	.....................LR........KRKEREEH...EM..ER...............VRLKIRRKEAVTSFQALL.........VERIKDP
  813-  878 (57.97/27.54)	MASWTESKpKLE.......KDPQGRAtnsdLDSADMEKL...FR..DHVKMLQ........ER...RARD......FRALLAEfltseaASQETD..
  879-  952 (66.70/32.71)	.DGKTVLN.SWStakrlikSDPRYNK....VPSEDREALwrrYA..EDMIRRQ.......kSSHDSKEEKHTDARGRKSL..E......SSKNPLES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.20|      18|      20|     152|     170|       2
---------------------------------------------------------------------------
  152-  170 (32.10/15.05)	PTAPTfPIHPVMPGTPGTP
  204-  221 (26.10/ 7.73)	PTASD.PNASHRGGLPYPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.40|      18|     102|     172|     189|       3
---------------------------------------------------------------------------
   68-   81 (26.73/ 7.74)	PPFHTH...TP.RPAAPS
  172-  189 (34.26/11.88)	PPGLTKPVMIPSNPAAPS
  277-  292 (27.41/ 8.11)	PPGVT.PVGAAS.ISAPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.38|      19|      20|     389|     407|       4
---------------------------------------------------------------------------
  337-  355 (36.26/20.99)	WTAHKTEAGIVYYYNALTG
  389-  407 (37.12/21.62)	WQLVSTSDGKKYYYNNRTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     156.69|      24|     163|      86|     109|       6
---------------------------------------------------------------------------
    2-   19 (23.84/ 6.62)	...S..QP.....P..LSAAE..TTPTSMPNS
   26-   52 (28.67/ 9.44)	TPASspAP.....PvSYAPHQNVNSSANSQQQ
   86-  109 (45.25/19.11)	FPQS..AP.....P.AFTGNQHGQSNTNMPDS
  114-  132 (29.73/10.05)	F..S..KV.....P.SASINLH...SAPAPTS
  250-  275 (29.19/ 9.74)	YPAA..FPgpfpfP.ARGGAL...PAVPVPDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.01|      13|      60|     414|     426|       7
---------------------------------------------------------------------------
  414-  426 (21.99/13.89)	PNEVAELKKK.QDS
  476-  489 (16.02/ 8.06)	PSALDLIKKKlQES
---------------------------------------------------------------------------




































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 MDP28506 with Med35 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EHAAERETRAKREEQDKLRERERELRKRKEREEH
2) IPNEVAELKKKQDSDVTKDHPTPVPNTNVLSERGSGMVALNAPAITTGGRDAVASKPFIV
3) LIKKKLQESGAPVTSSSIPTPSVQPGSESNGSKATDSTAKSLQNDNSKDKQKDANGDANVSDTSSDSEDEDSGPSKEECINQFK
4) LWRRYAEDMIRRQKSSHDSKEEKHTDARGRKSLESSKNPLESGRSHERR
5) MSQPPLSAAETTPTSMPNSSSSSSSTPASSPAPPVSYAPHQNVNSSANSQQQQQASHSGMNPNSVVNPPFHTHTPRPAAPSFSYNFPQSAPPAFTGNQHGQSNTNMPDSVTQDFSKVPSASINLHSAPAPTSISAMAPRSDPNYRPTTLWMP
6) PARGGALPAVPVPDSQPPGVTPVGAASISAPSSSNHLLRGTSGVQTEVISAHTDDKHKLNATVTQNEDAANDQLDAW
7) PTFPIHPVMPGTPGTPGPPGLTKPVMIPSNPAAPSTTGFPSAAVPRQNMPTASDPNASHRGGLPYPPI
8) SWTESKPKLEKDPQGRATNSDLDSADMEKLF
750
413
481
911
1
261
155
815
783
472
564
959
152
337
222
845










Molecular Recognition Features






MoRF SequenceStartStop




1) ALWRRYAEDMIRR
2) LIKKKL
910
481
922
486