<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 MDP16842

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQLTWFQFLPLESDLNSLADKSLKLEARDAATYLVLSSHLQLQKKGFLSTWTNSFVGPWDPSQGVHNPDEKIKLWLFLPGRHSSIAEAAQASVSKLRVVASGIWLSPGDSEEVAAALSQALRNCIERSLGAHSYVRYGDVYSKYNPFHSEEIYRRGQPTVEFVFAATEEAIFVHVIISAKHVRALSCDDMEKVSKRSSSAGRLPVIVSPNGMRGMLTGCCPGDLVKQVYLSSGKSKASNSLVGLPPHVSQGFSCQLRGQNCFAEVTIGSPISETDRASQSGLHTVKSIAKNHVAESPANGRGDQKGSQDRFAHEKTLVYPVEGVLVPVLQTSLTRTSLKRFWLQNWLGPSMHGSSFFMHCAPQFDSFDGAPETNGVRSQHSYYSSSNSNSSSLSSSSSETDNRMTARGGDLDADADSLTCKQSEISSADHLANDHGSKRSRAAAVQDGYKSDFGSLEVNDSAITGIATEQIGSHWDWDDDDRGVGTDIQALLSEFGDFGDFFENDALPFGEPPGTAESHALMFSGSDLGVGSSPVGVMDVSDEMLLPVGFSSFESFNPPPAVTEECISKSQEITTNSLPSAPIPNTPVSTSGDFDHLIKAEAFMTFAPEYGAIEAPLSDISSPIFRSPYLPKSRNVESANSSTNNYRYGATPPSSPRVIGSDEKSSLPLTSKNYQGRHDLGAAQHSKNYYTHVDGRKVPDGKRSNATLEAAQSSVSFSNMSSTNAVKSVQRRVSEGTSELDHFLLSSRIAIAMDIECLLIQSYMCKARHTLLSSGSTCSISSGRLTGGSILNTLPGEQSTLTDNVSGMYEVKKKESIPVRIAGDIDGLLDGHLNAPVNVWRPVGVPKVPKQSNSPGIEVSPSLPHNSYGEEGILSYGQRQPLQELLDGLPLLVQQATSFVDVTLDAECGDGPYGWLALEEQGRRGFCCGPSMVHAGCGGTLSSCHFLDIAGVELVDPLSADVHASSVLSLLQSDIKSALKAAFGNLDGLFGQRRNLEGPLTIQDWCKGRSQAADSGNLGDGFSAESSVGDCRDHSSTLTLSGGEPFSPCVSTAVASSNLKESEQQFSSRRKPTLYILPFPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYSVICPDIDPLTSAAADFFQQLGTVYETCKLGTHTPQTLGNQMEIDSGKSSTSGFVFLDCPQSMKMDSSNASLVGSISDYFLSLSNGWDLTSYLKSLSKTLKTLKLGFSMPTNPKEGSSVGSVVLPSDRRAALHNQVGKALSCSAGVDEASISNILVLSGFSVPKVVLQIVTVDTIFRVTSPTLSELTVLKETAFTVYGKARRISRGSSPDVQSSSLSSRSQSILTQMTSPMSSMWKDCVGPRMSGPSLPREGEMDANMRTAAWENSWQTRTGVLSCDISRSGDFPFHEETHFMFEPLFILSEPGSVEHGVSPAAFGGSISESSKPQSDDNTGSYLHPGSSTGTVDTGSSSQMDGSEPDIYGPGHQKLPSIHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFAQVLQQGCQILQACSSDNSAVKPRDFVITRIGSFYELEYLEWQKAIYSVGGAEMKSWSLQLRRFGSDGISTGNNGASLQQQEMSLIQERGLPSSPSPLYSPHSKTSGYMKGSLGQQTARKQLMGGQAAADGARGLLQWVQSISFVTISVDHSLHLVLQADSTSSGGSQMGSGTGPPPSYLEGFTPVKALGSASASYLLIPSPSMRFLPSTPLQLPTCLTAESPPLAHLLHSKGPSIPLSTAFVVSRAVPSMRKDFRGNLKEEWPSVLTVGLIDHYGGGNSGNHHHQEKMGRGGIKQRSINPEPRDFEVQTHSVLESVAAELQALSWMTVSPAYKERRTALPFHCDMVLRLRRLLHFADKEIFSQQQEKS
Length1915
PositionKinase
OrganismPunica granatum (Pomegranate)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Myrtales> Lythraceae> Punica.
Aromaticity0.08
Grand average of hydropathy-0.290
Instability index52.57
Isoelectric point5.75
Molecular weight206560.08
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
regulated transcription of nearly all RNA polymerase II-dependent
genes. Mediator functions as a bridge to convey information from gene-
specific regulatory proteins to the basal RNA polymerase II
transcription machinery. Mediator is recruited to promoters by direct
interactions with regulatory proteins and serves as a scaffold for the
assembly of a functional preinitiation complex with RNA polymerase II
and the general transcription factors. 


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

>MDP16842
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     663.43|     154|     728|     139|     292|       1
---------------------------------------------------------------------------
  139-  292 (259.79/164.96)	SLGAHSYVRYGDV.YSKYNPFHSEEIYRR.GQPTVEFVFAATEEAIFVHVIISAKHVRA.LSCDDMEKVSKRSSSAGRLPVIVSPNGMRGMLTGCCPGDL..VKQVYLSSGKSKASNSLVGLPPHVSQGFSCQ......LRGQ..NCFAEVTIGSPIS..ETDRASQS.G
  722-  867 (193.92/120.78)	...AQSSVSFSNM..SSTNAVKS..VQRRvSEGTSELDHFLLSSRIAIAMDIECLLIQS.YMC....KARHTLLSSGSTCSISSGRLTGGSILNTLPGEQ..STLTDNVSGMYEVKKK.ESIPVRIAGDIDGL......LDGH.lN..APVNVWRPVGvpKVPKQSNSpG
  873- 1027 (209.73/131.38)	SLPHNSYGEEGILsYGQRQPL..QELL.D.GLPL..LVQQATS...FVDVTLDAECGDGpYGWLALEEQGRRGFCCG..PSMVH.AGCGGTLSSCHFLDIagVELVDPLSADVHASSVLSLLQSDIKSALKAAfgnldgLFGQrrNLEGPLTIQDWCK..GRSQAADS.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     171.71|      41|      44|     454|     496|       2
---------------------------------------------------------------------------
  420-  449 (39.54/18.80)	...........GDLDADADSLTCKQSE.ISSA..DHLANDHGSK
  454-  496 (66.71/44.92)	AAVQDgyKSDFGSLEVNDSAITGIATEQIGSH.WDWDDDDRGVG
  501-  542 (65.46/37.37)	ALLSE..FGDFGDFFENDALPFGEPPGTAESHaLMFSGSDLGVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     209.60|      60|     118|    1332|    1414|       3
---------------------------------------------------------------------------
 1332- 1394 (105.07/39.73)	SRGSSPDVQSSSL..SSRSQSILTQMTSPMSSMWKDCVGP.RMSGPSLPREGEMDANMRtaaWENS
 1451- 1513 (104.52/50.64)	SKPQSDDNTGSYLhpGSSTGTVDTGSSSQMDGSEPDIYGPgHQKLPSIHCCYGWTEDWR...WLVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     224.43|      84|     406|    1111|    1296|       4
---------------------------------------------------------------------------
   24-   78 (78.76/15.77)	SDLNSLADKSLKL.EARDAATYL.VLSSHLQLQKKGFlSTWTN....SFVG....PWDPSQGVHN........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1028- 1061 (20.89/38.36)	.................................................................pdekiklwlflpgrhssiaeaaqasvsklrvvasgiwlspgdseevaaalsqalrncierslgahsyvrygdvyskynpfhseeiyrrgqptvefvfaateeaifvhviisakhvralscddmekvskrsssagrlpvivspngmrgmltgccpgdlvkqvylssgkskasnslvglpphvsqgfscqlrgqncfaevtigspisetdrasqsglhtvksiaknhvaespangrgdqkgsqdrfahektlvypvegvlvpvlqtsltrtslkrfwlqnwlgpsmhgssffmhcapqfdsfdgapetngvrsqhsyysssnsnssslsssssetdnrmtarggdldadadsltckqseissadhlandhgskrsraaavqdgyksdfgslevndsaitgiateqigshwdwddddrgvgtdiqallsefgdfgdffendalpfgeppgtaeshalmfsgsdlgvgsspvgvmdvsdemllpvgfssfesfnpppavteecisksqeittnslpsapipntpvstsgdfdhlikaeafmtfapeygaieaplsdisspifrspylpksrnvesansstnnyrygatppssprvigsdeksslpltsknyqgrhdlgaaqhsknyythvdgrkvpdgkrsnatleaaqssvsfsnmsstnavksvqrrvsegtseldhfllssriaiamdieclliqsymckarhtllssgstcsissgrltggsilntlpgeqstltdnvsgmyevkkkesipvriagdidglldghlnapvnvwrpvgvpkvpkqsnspgievspslphnsygeegilsygqrqplqelldglpllvqqatsfvdvtldaecgdgpygwlaleeqgrrgfccgpsmvhagcggtlsschfldiagvelvdplsadvhassvlsllqsdiksalkaafgnldglfgqrrnlegpltiqdwckgrsqaadsgNLGDGFSAESSVgDCRDHSSTLTLSGgepFS.PCV
 1199- 1293 (124.78/128.29)	SLVGSISDYFLSLsNGWDLTSYLkSLSKTLKTLKLGF.SMPTNpkegSSVGsvvlPSDRRAALHN.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................QVGKALSCSAGV.DEASISNILVLSG...FSvPKV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.47|      65|     279|    1517|    1588|       5
---------------------------------------------------------------------------
 1517- 1588 (95.93/70.94)	DARGELLD..SHIFPFGGISSRQDTKGLQCLFAQVLQQGcQILQacSSDNSavKPRDF......VITRIGSfyELEYLEW
 1800- 1872 (105.53/55.97)	DFRGNLKEewPSVLTVGLIDHYGGGNSGNHHHQEKMGRG.GIKQ..RSINP..EPRDFevqthsVLESVAA..ELQALSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.11|      30|     369|     308|     338|      10
---------------------------------------------------------------------------
  308-  338 (50.38/34.94)	PANGRGDQkGSQDRFA..HEKTLVYPVEGVLVP
  679-  710 (51.73/31.44)	PLTSKNYQ.GRHDLGAaqHSKNYYTHVDGRKVP
---------------------------------------------------------------------------




































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 MDP16842 with Med13 domain of Kingdom Viridiplantae
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