<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 MDP10006

Description Polymerase II transcription-mediator2
SequenceMHRYSSNSAGFSGGRDGARLEASPFSSSSSGYPVSSRRQQQLVPYKLKCDKDPLNNKLGPPDFYPQTPNCPEETLTKEYAQAGYKETVEGIEEAREIVLSQIPYFCKPDAVIKCKEALKKRLRAINESRAQKRKAGQVYGVPLSGSLLIKPGVYPEQRPCNEDARRKWIEALAQPNKRLRSLSEHVPHGYRRKSLFEGLIRYNVPLLRATWFIKVTYLNQLQTRQTPNSISVAGSDNQRSNQWTKDVVEYLQHILDEFCSKEGAFVHPSFREQSSPGPTAGTNQIKMKTEASPAAGDIEEPLVHFKWRYMVRLIQWHLTEELLVPSVLIEWLSNQLQERDSVDVLELLLPIMLGLVDTITLSQTYVRMFVELLVRRLNDASVVDSPKGPSVSSVIAELLRYMVLAVPDTFISLDCFPLPSFVVPDVYGRGALLKITSSGGISSSKRCDAYRYLSCGYAVCSIQKRAYDLATVANPNLQARGAAKVVQALDIALVTGNLSVAYSSLFNDLSDTLMEERWIKEVSPSLQSSLMWIGTVELSLICSIFFLCEWATCDYRDCRASPSRNVKFTGRRDLSQIHMAVSILKNKMDEMNNLSRSKSSTRVTLNNITKGSSLTDACLTAAAVDDTSGLQSNAKNVDEKKDTNDIFESPGPLHDIIVCWLDQHEVSSVAGFTRVDVLIVELIRNGIFFPQAYVRQLIISGITDKNDTMLDVERKRRHHRTLKQLPGSSLFDILEETRTVEEQQLYEMMSTYSSERRLVLSELSCDHSFYASGRGEYTASSCIRKQSDLPLASGGDKHGRVPEQVEDVKALLSSLLGFTYPSPVESEPRQIKTSFQESATSTLSQVETGEAKSGCEVCMRSKGQKLDDTATPFQGFSLIQSDEEDIWWVRKGTKLQESFNIEPVQKSVKQTSRGRAKVVRKTQSLAQLAAARIEGSQGTSTSHVCESKMSCPHHKPNIDGDNVKDFDHTRVANLTEIGKSLKRLRLLERRSVSSWLLKTVRQLIEGNETTAAKATNSISILSLQSDDKTTSKWRLGDEELLSVLYLLDTCCDLVSCARFLVWLLAKIRGGMGSSGQPGRSSMHTRNRDHQVCQVSEALVFSSLLRYENILLAADILPDVLSALVNRNSVSAIVRHPGSTAFAYVRYFLKKYRDVAGVAKWEKSFRTTCDQRLLAELDNGRSIDGELISSSGVSAGEEIDEQVRQKLNGRSSRLVQNMKEIVQRQADEIQRSLKEKKVLATPRNPPTFEKEDSYQIAHDIVSGLVECIRQNGGANPDGDLSTVASAVSAIVANAGHVIAKHLDFAGGNYQGVNSVSNSLNFVRHTLRVHINSLCLLKETLGDRFSRAFEIALAVETSGAVTAAFASPKMHRNQFQPSPEAHDAYGNHTSDLSNSGKGFVGRTAKVSAAVSALVVGAVVHGAVSLERMVAALKIKDGLDILQLLRGLKSSSNGVSRPTGTFRIEHSTDVLVHWFRVLLGNCRTVYDGLIADILGDSYILALSRLQQMLPLSVIFPPAYSIFAMVLWRRYIFNREDPQLYQSLSNAISDITRHQPFREICFRNTHRLYNLLASDVGDSEFAAMLETHSPDRNSKILPFIPLRARLFLDALIDCNTPTIQGDGASEPCDPKDNELKLSERLMQLLDTLQPAKFHWQWVEMRLLLDEQALMEKVAAGKTALESLRSLSPKAEGFTLSDSEKGFTEVILSRLLARPDAAPLYSEAVRLLGKLQESLVMDVKWILQGQDAILGRRSTRQQLVHIAQRKGLSTKAQVWKPWGWSSLLSDVIPNKT
Length1787
PositionKinase
OrganismZea mays (Maize)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Andropogonodae> Andropogoneae> Tripsacinae> Zea.
Aromaticity0.07
Grand average of hydropathy-0.276
Instability index49.68
Isoelectric point8.58
Molecular weight199004.61
Publications
PubMed=19965430

Function

Annotated function 
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP10006
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     267.99|      91|     532|    1122|    1224|       1
---------------------------------------------------------------------------
 1122- 1224 (124.90/123.34)	ALVNRnsVSAivrhpGSTAFAYVRYFLKKYRDVAgVAKWEKSFRTTCDQRLLAELDNGrSIDGELISSSGvSAGEEIDEQVRQKLNG.......RSSRlvQNMKEIVQRQ
 1664- 1761 (143.09/98.65)	ALMEK..VAA.....GKTALESLRSLSPKAEGFT.LSDSEKGFTEVILSRLLARPDAA.PLYSEAVRLLG.KLQESLVMDVKWILQGqdailgrRSTR..QQLVHIAQRK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     334.71|     113|     803|     629|     756|       4
---------------------------------------------------------------------------
  629-  756 (171.59/165.86)	GLQSNAKNVDEKKDTNDIFESPgplhDIIVCWLdqhevSSVAGFTRV..DVLIVELIRN...............GIFFPQAY.VRQLII..SGITDKNDTML.........DVERkrrhHRTLKQL...PGSSLFDILeeTRTVEEQQLYEMMSTYSSER
 1444- 1588 (163.13/118.95)	GLKSSSNGVSRPTGTFRIEHST....DVLVHWF.....RVLLGNCRTvyDGLIADILGDsyilalsrlqqmlplSVIFPPAYsIFAMVLwrRYIFNREDPQLyqslsnaisDITR....HQPFREIcfrNTHRLYNLL..ASDVGDSEFAAMLETHSPDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.59|      18|      23|       4|      25|       6
---------------------------------------------------------------------------
    6-   25 (27.86/24.21)	SNSAGFS.GGRDGARLeaSPF
   27-   45 (28.74/11.24)	SSSSGYPvSSRRQQQL..VPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.53|      25|      49|     346|     393|       7
---------------------------------------------------------------------------
  346-  370 (43.25/57.93)	ELLLPIMLGLVDT.ITLSQTYVRMFV
  397-  422 (41.28/13.94)	ELLRYMVLAVPDTfISLDCFPLPSFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.65|      28|     803|     468|     497|       9
---------------------------------------------------------------------------
  468-  497 (41.88/37.89)	DLATVAN..PNLQARGAAKVVQALDIAlvTGN
 1278- 1307 (42.76/31.44)	DLSTVASavSAIVANAGHVIAKHLDFA..GGN
---------------------------------------------------------------------------




































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 MDP10006 with Med12 domain of Kingdom Viridiplantae
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