<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 MDP04418

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLYATFIDMIDIDIDDIILTVIVASNGMRGRLTGCCPTDLVKQVYSTNSSNGSTVLGVSSQFPGCQLRGQSCYVEVTLGCLSGSAEKTVQSTSNPYMCITQYCTKSNPAVTDERRAKKPRLSETFPMLEKTLIFPVETVLVPIFYKACAKASLKRIWLRDSSGTSLSVMPSLWNCSDSNFINYCLGFGGSCDISLADSVLGEFIDSHRQRKYNNRNCSNSSSISSTSSTSNNSDVANTSVARELEADADSLSCRQSGLSLNDQLEKDNHKRASKRSWKEIAGSFDQACNVASGSIIDPYTSNRSLVGFQFDSIWDWDQGRCINVDIVDVVAEYGSFDDFFEDDNFDVILGELPGTEESQTAMFSATNGGETSSSPCLGKNDGPEQTPIPFPNLPLIEEHIQDIGPSNNEFMNQNMESTMDTGQSSITGDSSITNKYDYLKRAEAMMTVIPRYSAVETPFSEFSISIFRTPYVPKSKLVEKPSGLSSYVHSTTHPQLISEEKVEMASKAKMITGDYDTISSYSKYYNFVNGRKNYIKKKSITNEMTLHEDDNLSSLSGITFPSSSTSFQEKKTDDTLETGCLLMSLKTVLGTELECGMYQASMRRIRHTLLFCNQVPKSLVMRTSQGLSIQVTGDQSMMPNMISSGNGIKKKDSIPVRIAGDIDSVPDNSVTAPLGVWRVVAPSKSTKASNMLNVESSPFPKNNAVEDFPVFSRRQPLQELLDAISLLVQQSTSFVDVSLDPCDGDGSYDFLTLEEQIRRGFVCGPSSVHAGCGGVLASCHSVDIAGVDLVNPLSTDVRVSSVISLLHSEVRVAMRAAFGNLEGPLSVIEWCNGHNQSGDTINTGDIHYAECNNTELNDSSSEFIGEAISPTFASNISSLRDGVRIDESSQRRSNQEQEHKISGFRNRPTISMLPLPSLLIGFQDDWLKTSPIILNSWEKEQFEPYALPKPLTYCAVCPDIDFLTFASATFLRQIGIVYESCNLGTHSPYLIGSQLDIASKKSSIPGLVLVDCPQTMKKTGMASTSENVLNDYLISSKKNWDLKSFLVSLANSLKTLKLGSVLSTNQKDGTNVPTLVVYVVCPFPGTTAVLQTLVESCVALGSAVHASEKESRTLLHSQISKDLNSAAPADEASTSNVVMLSGFSIPNLVLQIVSLDLLLRVDMPWKEHFVLKDLAFTIYNKARRVVRSSSNVDVIQSQSTPGRSQSTLMHASSSSPGFWKDCLPPRISNPVIARETEHDSAIRHGVWDNSWQTLRTSGGLNYDSTRLIEKWADNFRCMFEPLFILAEPGSVEQVIPLVGYNNVSSESSNSRSLVDDSSSGYMQTSASSGNNTSPLLDDTDREHKLYSLHCCYGWTEDWRWLICIWTDSKGELLDSQIFPFGGISSRQDTKVLQCLFVQILQQGCQIISSSLYFGSTKLRNIIITRIGCFFELECQEWQRAIYLVGGNEVKKWPVQLRRSVPCGASSTSNGPSLQQQDISLIQERSMSSSSLPSMYNPHPKSSGYMKGTLGQSNYKKAISGSQPMDCSRGLSQLVQSISLIAVSVDHSLHLFIPTDSSSLDGINQNGNSTTGHLESFNSVSSLGEIPSSYMFIPTPSVRYLPPSPSQLPTCLTSESPPLAHLLHSKGSAIPLSTGYIVSKAVPSARKGRTGKTNQEWPSIISVTLIDHYGGNIDNFQEKMARGVNSSSGVKQGISSSGSGRISCLESNTRDCEFEKHLVLESISAELHSLSWMTISPMYPERRTALPFHCDMLLRLRRLLFYADKHLALQSLDK
Length1773
PositionKinase
OrganismZostera marina (Eelgrass)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Zosteraceae> Zostera.
Aromaticity0.07
Grand average of hydropathy-0.242
Instability index52.45
Isoelectric point5.56
Molecular weight194595.38
Publications
PubMed=26814964

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

>MDP04418
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     572.31|     186|     204|     342|     545|       1
---------------------------------------------------------------------------
  342-  545 (299.77/179.41)	DDNfdviLGELPG.TEESQTAMFSATNGGETSSSPCLGKN....DGPE.QTPIPFPNLPLIEEHIqdigpsnnEFMNQNMES.TMDTGQS...SITGDSS...........ITNKYDYLKRAEAMMTVIPRYSaVETPfsefsISIFRTPYVPKSKL..VEKPSGLSSYVHSTTHPQLISEEKVEMASKAKMITGDYDTISSYSKY..YNFVNGRKNYIKKKSITNEMT
  549-  725 (216.37/106.05)	DDN....LSSLSGiTFPSSSTSFQEKKTDDTLETGCLLMSlktvLGTElECGMYQASMRRIRHTL........LFCNQVPKSlVMRTSQGlsiQVTGDQSmmpnmissgngIKKKDSIPVRIAGDIDSVPDNS.VTAP.....LGVWRV..VAPSK...STKASNMLN.VESSPFPKNNAVEDFPVFSRRQPLQELLDAIS............................
  988- 1063 (56.17/18.47)	.....................................................................................................................................................PYLIGSQLdiASKKSSIPGLV.LVDCPQTM..KKTGMASTSENVLNDY.LISSKKNWdlKSFLVSLANSLKTLKLGSVLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     355.55|     137|     182|    1251|    1419|       2
---------------------------------------------------------------------------
 1251- 1356 (104.17/94.12)	..................................................................................WQ.TLRTSGGlNYdstrlIEKWADNFR....CMFEPlfILAEPGSVEQVIPLVGYNNVSSESSNSRSLVDDSSSGYMQTSASSGN......NTSPLldDtdrehklyslhCCYGWTE
 1357- 1532 (202.40/143.16)	DWRWLICIWTDSKGelLDsqifpfgGISSRQDTKV..LQClFVQILQQGcQIISSSLYFGSTKLRniiitrigcffelecqeWQrAIYLVGG.NE.....VKKWPVQLRrsvpCGASS..TSNGPSLQQQDISLIQERSMSSSSLPSMYNPHPKSSGYMKGTLGQSNykkaisGSQPM..D...........CSRGLSQ
 1545- 1598 (48.98/16.27)	DHSLHLFIPTDSSS..LD.......GINQNGNSTTghLES.FNSVSSLG.EIPSSYMFIPTPSVR......................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.66|      29|      41|     174|     203|       4
---------------------------------------------------------------------------
  174-  203 (49.89/38.30)	NCSDSNFINYCLGFGGSCDISlADSVLGEF
  216-  244 (47.76/31.28)	NCSNSSSISSTSSTSNNSDVA.NTSVAREL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.41|      38|     454|    1174|    1246|       7
---------------------------------------------------------------------------
   26-   64 (64.82/27.11)	NGMRGRLTGCCPTDLVkQVYSTNSSNGSTVLGVSSQFPG
 1180- 1217 (64.59/82.07)	NKARRVVRSSSNVDVI.QSQSTPGRSQSTLMHASSSSPG
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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 MDP04418 with Med13 domain of Kingdom Viridiplantae
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