<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 MDP17672

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQVSWFQYLPNESDPNISDRSAKLNQRDFAAQLVLSSHLQLQKDGFLSTWGNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHSSPNDKAKAIVSKLRVLASGVWLAPGDSEEVAAALSQALRNCIERALVNLSYMRFGDVFSRYHPSSQGESFRRGRPMLEFIFTATEEAVFVHVIISAKHVRALSNGDMEAILKRTSSHSSDRLPVIASPHGMRGRLTGFCPGDLVKQLYFSSGKFKASNGIVGLPNQMSQTSGCQLRGQKCYLEVTLGCESVKNEKPLPSNSTKNFSKHHSTENEKGPTYDKTFIYPTEAVLVPVVQTSSARSSLKRFWLQNWMGPSLSGSSFSMQCDALSSMDGSWHDASIRCQQGYNSSGNSNSSSISTSSSSDSDYRMTAETGDLEADADSLSCIKSGLTSADQMHIDASKMGSKRSRPGMTESYGQAGAVINDFGSMEVNNEQGGSQWDWDDDDRGMGMDIQALLSEFGDFGDFFENDALPFGEPPGTEESQTQTPMFSATDGGDASSSPFTGMMDASDQIIIPLGFSSFESFNPPSTVVEESISKNQELTKETVSSGSMNYNPPANNTEFDYVIKAEAMMTFAPEYSAVETPGNDLLLTVIKTPYVPKSRTTESANSSTNNYIYSSIPPKHDLSDDKSGANLNDKNYYTHVESGKLKDKKDVKDEKLSFRDSFGFGEDVANANASGFSSLSTASRSKILEGGLGMENFVLSSKTGVANELECVMFQAFMCRIRHTLLASNRLSGNNNNNNNNNNNNNNNNNNTILYQMHSESNVLGDNMSSKYDIKKKETIPVRIAGGDMDTGLLDGPLNSPVGVWRTVGVAKGSKAMSMTQNMESFGNIPHNSFTEEGMLLSYGQRQPLLELLDGMSLLFQQALTFVDVTLDSDCGDGPYGWLAMQEQWRRGFSCGPALVHAGCGGVLAASHSLDIAGVELADPLSADVPASYAITLLQSDIKLALKSAFGNFDGPLSVMDWCKGRNGQIDGFSAESSASINDCRDSSSTPTSPSQSAGGSTSCLSKDGNRIDDVSERRSNQDESEQQLGLRPALLVLPIPAILVGYQDDWLKTSASSLQHWEKAPFEPYAMQKHMNYCVVCPDIDPLTTAAADFFQQLDTVYETCKLGTHSPQNLGNQTSKDSVKWSTSGFVLLDCPQSMKIEGDSASLVGSISDYFLSLSNGWDLTSFLKSLSKVLKTLKLNSIFAPNSKEGNTTPCTVIYVVCPFPEPVSILKTVVESCVAIGSAMCPPSDKERRSALQNQVGKALSCTTAVDEASISNIVTISGFSVPKLVLQIITVDSIFRVTTPSLNEPVILKEIAFTVYNKARRISRGNGIADSIPSVRSQSQSHSGMMQMNSNSPIPGMWKDSIAPRMVGPREGEWDNNSWQMSNRVTGEYFLQDELKYMFEPLFILADSPERGIPPESLKVLSDDGTSSDTGDGLDDGYGSTHKPPPSLHCCYGWTEDWKWLVCIWTDSRGELLDSYTFPFGGISSRQDTKGLQFLFVQILQQGCQILQACSPETTTARPRDFVITRIGCFFELECQEWQKALYSIGGSEVKKWSLQLRRSVPDGIPASSNGGSEMGMIQDRNLAAHGKGGGFMKGGGMGQAASRKQILSGGGGGGHMGMDNSKGLLQWVQSITFVSVSVDHSLQLVYQADSSPGTTQGSGIMGQSVYTEGFTPVKSLGSTSASYIFIPSPTMRFLPPNPLQLPTCLTSESPPLAHLLHSKGSAIPISTGFVVSKAVPSMRKDSRTNSKEEWPSVLSVALFDYYGGNNNNNSNNNNNNNNNNNNNNNEKTSKNMGKSMENHVILDRVAAELHALSWMTVSPGYLERRTSLPFHCDMVLRLRRLLHFADKQLSQISVKSEV
Length1887
PositionKinase
OrganismLactuca sativa (Garden lettuce)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> campanulids> Asterales> Asteraceae> Cichorioideae> Cichorieae> Lactucinae> Lactuca.
Aromaticity0.08
Grand average of hydropathy-0.382
Instability index45.47
Isoelectric point5.44
Molecular weight205611.07
Publications
PubMed=28401891

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP17672
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.95|      33|    1027|     771|     806|       1
---------------------------------------------------------------------------
  771-  806 (61.79/45.37)	GNNNNNNNNNNNNNNNNNNTilyQMHSESNVLGDNM
 1793- 1825 (66.17/40.58)	GNNNNNSNNNNNNNNNNNNN...NNEKTSKNMGKSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.96|      18|      19|    1613|    1631|       2
---------------------------------------------------------------------------
 1595- 1610 (29.62/12.98)	ASSNGGSEM...GMIQDRN
 1613- 1631 (32.79/19.34)	AHGKGGGFMkGGGMGQAAS
 1636- 1650 (31.55/14.32)	LSG.GGG...GGHMGMDNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     392.72|     126|     561|     816|     957|       3
---------------------------------------------------------------------------
  816-  957 (187.90/170.03)	ETIP.VRiAGGDMDTGLLDGPLNSPV.GVWRTvGVAK...GSKAMSMTQNMESFGN.IPHNSFTEEgmLLSYgQRQPLLELLD....GMSLLFQQALTfvDVTLDSDCGDG.................pYGWlamQEQWRRgFSCgpalVHAGCGGVLAASHSLDIAGV
 1358- 1511 (204.82/130.91)	DSIPsVR.SQSQSHSGMMQMNSNSPIpGMWKD.SIAPrmvGPREGEWDNNSWQMSNrVTGEYFLQD..ELKY.MFEPLFILADsperGIPPESLKVLS..DDGTSSDTGDGlddgygsthkpppslhccYGW...TEDWKW.LVC....IWTDSRGELLDSYTFPFGGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.77|      17|      19|     409|     425|       4
---------------------------------------------------------------------------
  409-  425 (28.78/19.99)	D.LEADADSLSCIKS..GLT
  428-  447 (21.98/13.11)	DqMHIDASKMGSKRSrpGMT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.08|      16|      19|    1672|    1687|       5
---------------------------------------------------------------------------
 1672- 1687 (29.39/16.41)	QLVYQADSSP....GTTQGS
 1692- 1711 (23.69/11.65)	QSVYTEGFTPvkslGSTSAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     215.27|      68|     564|     452|     523|       6
---------------------------------------------------------------------------
  452-  523 (118.09/67.55)	QAGAVINDF...GSMEVNNEQ..GGSQWDWDDDdrGMGMD..........................IQALLSEFGDfgDFFENDA..LPFGEPPGTEESQTQTPM
 1014- 1114 (97.18/46.22)	ESSASINDCrdsSSTPTSPSQsaGGSTSCLSKD..GNRIDdvserrsnqdeseqqlglrpallvlpIPAILVGYQD..DWLKTSAssLQHWEKAPFEPYAMQKHM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.57|      12|      15|     356|     367|       7
---------------------------------------------------------------------------
  356-  367 (21.68/11.28)	SMQCDALSSMDG
  373-  384 (20.89/10.56)	SIRCQQGYNSSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     364.73|     118|     561|      68|     191|      10
---------------------------------------------------------------------------
   68-  191 (193.33/142.62)	PWDP.SQGLHNPDEKIKLWLF..IPGRHSSPNDKAKAIVSKLRV...LASGVWLAPGDSEEVAAALSQALRNCIERALVNLSymrfGdvFSRYHPSSQGESFRRGRPMLEFIFT.....ATE.EAV.FVHVIISAKH
  631-  761 (171.40/111.16)	PYVPkSRTTESANSSTNNYIYssIPPKHDLSDDKSGANLNDKNYythVESGKLKDKKDVKDEKLSFRDSFGFGEDVANANAS....G..FSSLSTASRSKILEGGLGMENFVLSsktgvANElECVmFQAFMCRIRH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.63|      24|     936|     210|     233|      14
---------------------------------------------------------------------------
  210-  233 (46.54/28.69)	HSSDRLPVIASPHGMRGRLTGF....CP
 1149- 1176 (41.10/24.34)	HSPQNLGNQTSKDSVKWSTSGFvlldCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.70|      13|      26|     589|     602|      17
---------------------------------------------------------------------------
  589-  602 (20.22/17.28)	NP.......PANNTEFDyVIK
  610-  629 (16.48/ 7.28)	APeysavetPGNDLLLT.VIK
---------------------------------------------------------------------------




































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 MDP17672 with Med13 domain of Kingdom Viridiplantae
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