<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 MDP00275

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKLVGLHQISWFQFLPLESDLNPLPDRSVKSETKDSATFLVLSSHLQLQKKNFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHLSVVETAQAAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCIERALSGLSYMRYGDVFSKYNPFQSEGIFRRGQPTVEFVFAATEEAIFIHAIVSAKHIRALSSDDLERALRHASRNSSHRHPVIVSPNGMRGRLIGGCPSDLVKEVYLGSGKSKASSGLIGLPSHVSQGFVCQLRGQACYAEVTVGCPITETDKALAQRSNTLRSECLSAGRCDQKVSQDHSSTYEKTFIYPNEAVLVPVLNASLTRSSLRRFWLQNWLGPSLMGSSYFMHCGPQMDTLEDSNGLCTQKSYYSSSNSNSSSLSSLSSSSSESDYNMTSAAGDLEADADSLISSAELQNDRLKMGTKRPRSIMTDMYGQVDAAVPMQEAYKSDFGSSEVNTSAITGVANEQIGSHWDWDDDERGVDMDIQALLSEFGDFGDFFETEALPFGEPPGTAESQTLMFSGSDLVVGSSPVGMMDVSESMLLPVGFPSLEGFNPPAVSEEFLSKNQEITLPSGPIVDTPASNIGEFDHIIKAEALMTFAQEYGAVEAPTSDFSSSIFKNPYLPKSCNVESANSSTNNYKYGATPPSSPCLDGSDEKNGVALTSKTYQGNDARLKNYYTHVEAGKVKDGTLSKCNDSSAISMEAAPSSVSFSNVGPANVVKPGQKKVIEGAMDHLVLSMKTVLATEVECLAFQASMCKIRHTLLSSTVQAPVTSSRLSGSAILNHLPGDQSTMTDNISSMFDVKKKETIPVRIAGDVDGGLLDGNLNASVRVWRTVGVPKVPKASSSPGIEVCPSPLNSFSEEGGLSYGQRQPLQELLDGMQFLVQQATSFVDVTLDADCGDGPYGWLALEEQWRRGFSCGPSMVHAGCGGTLASCHALDVAGVELVDPLSADVQVASVISLLQSDIKSALKAAFGNLDGPLSVTEWCKGRNQLGDVGNMADGFSAESTVGECRDPSNTPTFSGGEASSPSQSTAVGSSNIRVTSGLDGSKLDESFQRRLSQDNSSESGQQFSSRLRPTLYVLPLPAILVGYQDDWLKTSAGSLQVWEKAPLEPYALAKPVSYYVLCPNIDPLTSAATDFFQQLGTVYETCKLGTHLPQTMGNQMETDSGKASTSGFVLLDCPQSMKMVGSNASLVGSMSDFFLSLSNGWDLTSYLKSLSKALKGLKYVPCSTTNPKEGNSSSCLVIYVVCPFPEPNAVLKTVIESSVAMGSVILPAERRGTLSNQVGKAMSCSAAVDEASTTNILVLSGFSISKIVLHIVTVDAIFRVTSPTLSELTILKETAFTVYNKARRISRGSCDVQSSSLSGRSQLAMTQMTSSMSPMWKECVGPRISGPSLTREGEMDASLRTAAWDNSWQTRTAGLSSDTSRAGDFLSQEEARCMFEPLFILAEPGSLEHGVSPTFSASLVNELSKGQSDDGGGGFMQSASSVRSADSASSSPVDGSESDSYGSGHKKLPTIHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFAQVLHQGCQILQICSDNAAVKPRDFVITRIGSFYELEYLEWQKAIYSVGGAEMKSWTLQLRRSLSEGMSVGANGASLQQQEMNLIQERPLPSSPSPLYSPHSKTSGYMKGGLGPSTARKQVMGGHAGVESPRGLLQWVQTISFVTVSVDHSLNLVYPVDVPSPGGAQSGSTMGPSGYLEGFTPVKSLGSTSASFLLIPSPSMRFLPPTPLQLPTCLTAESPPLAHLLHSKGAALPLSTAFVASKAVPTMRKDFRGNLKEDWPSVLSVGLIDYYGGTNVNQDKVSRGITKQGGRTLSSEAKDLEVEMHIVLESIAAELQALSWMTVSPAYIDRRTALPFHCDMVLRLRRLLHFAEKELSRQPEKL
Length1950
PositionKinase
OrganismEucalyptus grandis (Flooded gum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Myrtales> Myrtaceae> Myrtoideae> Eucalypteae> Eucalyptus.
Aromaticity0.07
Grand average of hydropathy-0.183
Instability index51.11
Isoelectric point5.36
Molecular weight209827.27
Publications
PubMed=24919147

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

>MDP00275
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     653.86|     220|     746|      47|     355|       1
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   47-  310 (331.28/207.53)	LSSHLQLQKKNFLSTwtnSFVGPWDPSQGLHNPDEKIKLWlflpgRHLSVVETAQAAVS.GLRVVASGL.......WLAPGDSEEVAAALsQALRNCIERALSGLSYMRYGDVF.SKYNPFQSEGIFRRG...QPTVefVFAATEEAI.FIHA..IVSAKHIRALSSDdleraLRHASRNSSHRHPVIVSPNGMRGRLIGgcpsdlvkevylgsgkskassgliglPSHVSQgfVCQLRGQ.........ACYAEVTVG.C.............PITETDKALAQRSNTLRSECLSAGRCDQ
  815- 1072 (322.58/140.00)	ISSMFDVKKKETIPV...RIAGDVDGGLLDGNLNASVRVW.....RTVGVPKVPKASSSpGIEVCPSPLnsfseegGLSYGQRQPLQELL.DGMQFLVQQATSFVDVTLDADCGdGPYGWLALEEQWRRGfscGPSM..VHAGCGGTLaSCHAldVAGVELVDPLSAD.....VQVASVISLLQSDIKSALKAAFGNLDG..........................PLSVTE..WCKGRNQlgdvgnmadGFSAESTVGeCrdpsntptfsggeASSPSQSTAVGSSNIRVTSGLDGSKLDE
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     480.51|     150|     222|    1472|    1635|       3
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 1472- 1635 (245.94/138.11)	GSLEHGVSPTFSASLVNELSKG.QSDDGGGGFMQSASSVR.SADSASS..SPVDGSESDSYGSGHKKLPTihccyGWTEDWRWLVCIW.TDARGELLDSHIFPFGGISSRQDTKGLQCL...FAQVLHQGCQILQICSDNAAVK..P...RDFvitRiGSFYEleylEWqKAIYSVG
 1692- 1854 (234.58/106.37)	GYMKGGLGPSTARKQVMGGHAGvESPRGLLQWVQTISFVTvSVDHSLNlvYPVDVPSPGGAQSGSTMGPS.....GYLEGFTPVKSLGsTSASFLLIPSPSMRFLPPTPLQLPTCLTAEsppLAHLLHSKGAALPLSTAFVASKavPtmrKDF...R.GNLKE....DW.PSVLSVG
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     219.70|      72|     809|     368|     444|       4
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  368-  444 (108.90/76.58)	GPQMDTleDSnGLCTQKSYYSSSNSNSSSL..SSLSSSSSESDYNMTSAAG.DLEADADSLisSAELQNDR.LKMGTKRPR
 1180- 1255 (110.79/63.33)	GNQMET..DS.GKASTSGFVLLDCPQSMKMvgSNASLVGSMSDFFLSLSNGwDLTSYLKSL..SKALKGLKyVPCSTTNPK
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.88|      19|     161|     446|     471|       5
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  446-  471 (27.42/33.50)	IMT..DMYGqvdaAVpmqEAYKSDFGSS
  614-  634 (32.46/18.03)	LMTfaQEYG....AV...EAPTSDFSSS
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.99|      41|     746|     311|     355|       9
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  311-  355 (62.02/50.50)	KVSQDHSSTYEKTF...IYPNEAVLvPvLNASLTrsSLRRFWLQNWLG
 1077- 1120 (68.97/41.18)	RLSQDNSSESGQQFssrLRPTLYVL.P.LPAILV..GYQDDWLKTSAG
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.77|      27|     125|     576|     603|      10
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  533-  564 (35.30/12.41)	SQTLMFSGSDLVVGSSPVgmMDVSESmllPVG
  577-  603 (45.47/21.49)	SEEFLSKNQEITLPSGPI..VDTPAS...NIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.38|      32|     938|     490|     527|      11
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  490-  527 (53.82/43.22)	WD..WDDDERGVDMDiqalLSEFGDFgdFFETEALPFGEP
 1431- 1464 (57.56/31.51)	WDnsWQTRTAGLSSD....TSRAGDF..LSQEEARCMFEP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.35|      55|     543|     745|     801|      13
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  745-  801 (88.27/71.93)	VIEG..AMDHLVLSM..KTVLATEV....ECLAF..QASMCKIrhTLLSSTVQAP.............VTSSRLSGSAIL
 1281- 1358 (62.08/42.56)	VIESsvAMGSVILPAerRGTLSNQVgkamSCSAAvdEASTTNI..LVLSGFSISKivlhivtvdaifrVTSPTLSELTIL
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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 MDP00275 with Med13 domain of Kingdom Viridiplantae
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