<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 MDP12294

Description pre-mRNA-processing protein 40C
SequenceMVQTDQTMKPLQNRRVDIAHKMGAMTSPPSVMQSFSQAGHMSSGSSTAAFPTSHLGSPNIRMPHAPQFQVPAGVPRSPVTPGPPGLGPVIPSSSNVTATASPGGPSLSLRPNGPPVPVLANPPVQQQIYSPYLSASPMAPTQGPWLQPSPVTTMLRPPFPSHPAGFAVPFPLSATGAPRSSATLPDTRPPGVASVATPPGVPTTATQSIPALGLQPELPPGVDSAKHVNDADTIEGAPTSEQLETWTAHRTETGAIYYYNSLTGESTYEKPAGFSGEPAKVAAQPTPVSWEKLAGTDWALVTTNDGQKYYYNTKTKLSSWQIPNDVTELKKKHEADALQAQSTSMPNANALTEKGSSPISLSIPAVNTGGRDATTLRSSVVPGSSALDLVKKKLMDAGATAAASSPTPASSGVISSELNGSEALESTARAPQKENSKDKSKEANDNGNMSESSSDSEDDESVPTKEDCIIQFKEMLKERGVAPFSKWEKELPKIVFDPRFKAIPSYSARKALFEHYVKTRADEERKEKRAAQKAAVEGFKHLLEEAKEDINEDTDYQSFKKKWGHDSRFESLDRKDREVLLNERVLQLRKAAQEKAYAVRAAAISQFKSMLREREDITLNTRWSKVKDSLRDDPRYKSVKHEDREALFNEYLSELKAAEQEVARIAKAKHDEEEKLKERERALRKRKEREEQEVERVRSKARRKEAVESYQALLVEIIKDPQASWTESKPKLEKDPQGRAANPHLDQSDLEKLFREHVKILYERSAQEFKALLAEVITVEACSRETEDGKTVGNSWSTAKQLLKADPRYSKMPRKDRESLWRRYVEDIQRRQKSALDEV
Length839
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-0.760
Instability index54.09
Isoelectric point8.49
Molecular weight92481.72
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

>MDP12294
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     158.73|      28|      28|     167|     194|       1
---------------------------------------------------------------------------
   81-  109 (24.93/ 7.58)	PG..PPGLGP....vipsssnvtATASP....GGP..S..LSL
  110-  143 (28.22/ 9.57)	RPNGPP.VPV...lanppvqqqiYSPY.LSA..SPMAP..TQG
  144-  184 (38.22/15.60)	PWLQPSPVTTmlrppfpshpagfAVPFPLSATGAPRSS..ATL
  185-  212 (36.92/14.82)	PDTRPPGVAS............vATPPGVPTT.ATQSI..PAL
  216-  246 (30.45/10.91)	PEL.PPGVDS...........akHVNDADTIEGAPTSEqlETW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     409.40|      65|      66|     530|     594|       2
---------------------------------------------------------------------------
  471-  518 (53.63/24.96)	..........QFKEMLKE..RGVAPFSKWEKELPKIVFDPRFKA....IPSySARKALFEHYVK.........
  530-  594 (104.80/55.00)	A..AQKAAVEGFKHLLEEAKEDINEDTDYQSFKKKWGHDSRFES....LDR.KDREVLLNERVLQL.RKAAQE
  598-  661 (98.38/51.23)	A..VRAAAISQFKSMLRE.REDITLNTRWSKVKDSLRDDPRYKS....VKH.EDREALFNEYLSEL.KAAEQE
  701-  768 (84.49/43.08)	A..RRKEAVESYQALLVEIIKD..PQASWTESKPKLEKDPQGRAanphLDQ.SDLEKLFREHVKILyERSAQE
  771-  825 (68.11/33.46)	AllAEVITVEACSRETEDGKTVGN...SWSTAKQLLKADPRYSK....MPR.KDRESLWRRYV..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     168.23|      46|      46|     337|     382|       3
---------------------------------------------------------------------------
  304-  366 (59.09/36.15)	NDGQKyyynTKTKLSSWQ.IPndvtelkkkheadALQAQSTSMPNANALTEKGS.SPISLSIPAV
  367-  414 (63.34/39.35)	NTGGR....DATTLRSSV.VP..........gssALDLVKKKLMDAGA.TAAAS.SPTPASSGVI
  415-  463 (45.79/26.14)	SSELN....GSEALESTArAP..........qkeNSKDKSKEANDNGNMSESSSdSEDDESVP..
---------------------------------------------------------------------------




































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 MDP12294 with Med35 domain of Kingdom Viridiplantae
Unable to open file!