<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 MDP12265

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMMWTNVFKIGGLHQISWFQFLPHESDVNSVVDKSVKLDKKDAATWLVLSSHLQLQKQGFLSTRTNSFVGPWDPSQGLHNPDEKIKLWLFIPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERTLRGLSYVRYGDVFTKHHPLSQNEELFRKGQPVVEFLFSATEEALFVHVIISAKHIRALSSGDIDKISEDTSHVSGERLPGKLKKHLDLMWLPYCGSSCLTCSNSSGKFSASNDIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNYIQESSNAQNNLSRPTITEASAMANVVQSRIPDNCGRMLIYPPEAVLVPVVQTACARSSLKRFWLQNWIGPSLSFASSIMHCYDFSSDAKVNSMDGSWLDANVMRSNRRYNSSSNSNSSSVSSISTSSSDSDYKTSGAGDLEADADSLMCRQSGLSSVDQSQNDILKTGFKRSRISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQIGLQWGWDDDDRGAGMDIQALLSEFGDFGDFFESDALPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGYPSYDSFNQPPPPAILDDSMSKHQEVIKSTAVANQVNSASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGENSHSIFRNPYVPKSREVETANSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGRHDTSSSTQSRRYYTHIESGKEKNDGKLSGSDHSCSTRETQVAESPFSGFNSTNSVKSIHNKTEKANEALLKADSFGQSMRTVLATEVDCLMCQAFMCKIRHTLLSSSSYLPVGTSRMSGSTIINQPQGEGVVTVDNMSSKSEMRKKEIIPIRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSGLEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTAEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTVSFSVGEPISPSQSSAGGSSSLKYGIRMDEASERRLSQDTCLSQSEQLPGSRLRPTLSADPAILVGYQDDWLKMGPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAAIDFFQQLGTVYEMCKLGTHSPQCMGNEMEIDSGKNASSGFVLIDCPQSMKIDSSSASMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLGSCMTMNPKEGSTDPCTVIYVVCPFAEPLAVLQTVIESSIAAGSVILSSDKERRSTLQNQVGRALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPAVSELVILKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQISRGGGLGCDPNRMEDFSFQDEVRYLFEPLYILAEPGSLDRGLSFPMSCNPMAESSKLLLDDGTSGNFMQSSASSGGGDIGTNNQSETSEPDGFGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFEGISSRQDTKGLQSLFVQILRQGCQILQACLPEAAIAKPRDFVIARIGSFFELECQEWQKALYAVGGSEVKKWSLQLRRSVPDGMSASSNGTSLQQQEIGLIQEKALPSSPSPLYSPHSKASSFVKGGLGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMLQADLMSHGTSQSSGILSQPGYLEGYTPVKSLGSTSTSYILIPSPSMRFLPPVSLQLRTCLTAESPPLAHLLHSKGCAIPLSMGFVVSKSVPTMRRDARSVSKEEWPSVLSVNLVDYYGGSNIIQEKFLKGVGKIGGRDIGSETRDVEIETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDTVLRLRRLLHFADKEVSRQPEKSQV
Length1983
PositionKinase
OrganismNicotiana tabacum (Common tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.07
Grand average of hydropathy-0.237
Instability index55.55
Isoelectric point5.38
Molecular weight214859.59
Publications
PubMed=24807620

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

>MDP12265
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     352.28|     111|     122|    1437|    1557|       1
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 1442- 1557 (186.77/112.30)	TSLQRE.AELDASL.RSGSWD....NWQISRGGGLGCDPNRMEDFSFQDEVRYLfEPLYIlaepGSLDRGLSFPMSCNPMAESSK....LLLDDGT.....SGNFMQSSASSGGGDIGT.NNQSETSEPDGF
 1559- 1685 (165.52/80.80)	SAHQKSlPSLHCCYgWTEDWRwlvcIWTDSRGELLDNYIYPFEGISSRQDTKGL.QSLFV....QILRQGCQILQACLPEAAIAKprdfVIARIGSffeleCQEWQKALYAVGGSEVKKwSLQLRRSVPDGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     282.98|      75|     123|     425|     544|       2
---------------------------------------------------------------------------
  425-  501 (120.22/55.71)	AGDLEADADSLMCrQSGLSSVDQ...SQNDILKTGFKRSRISESFSQ...AGAVI..NPST.SDYASMEVNNSAITGGNDQiGLQW
  551-  598 (64.87/74.75)	AAD.SADVGSSPC.PSMMDVQDQ...M...LLPVGYPS...YDSFNQ.ppPPAIL..DDSM.S.......................
  790-  870 (97.90/38.23)	...LATEVDCLMC.QAFMCKIRHtllSSSSYLPVGTSRMSGSTIINQpqgEGVVTvdNMSSkSEMRKKEIIPIRIAGDIDG.GLLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.32|      40|      78|    1231|    1271|       3
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 1231- 1271 (63.95/44.48)	IDSSSAS...MLGSISDYFLSLSN..GWDLeSYLKSLSKVLRN.LKL
 1307- 1352 (50.37/29.66)	IESSIAAgsvILSSDKERRSTLQNqvGRAL.SYSAAVDESLSNvLTL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.66|      16|     566|     633|     663|       5
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  633-  648 (28.67/36.08)	LMTFAPEYGAVETPTG
  681-  696 (30.98/ 7.94)	TPPLSPCFDACEEKSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.65|      21|     566|    1199|    1219|       6
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 1199- 1219 (40.09/25.99)	HSPQCMGNEMEIDSGKNASSG
 1767- 1787 (37.57/23.80)	HSLQLMLQADLMSHGTSQSSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.10|      16|     765|     931|     970|      10
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  347-  362 (31.51/12.10)	LKRFWLQNW.IGPSLSF
  957-  973 (28.60/33.39)	LQEQWRRGFsCGPSMVH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.59|      31|      39|    1032|    1070|      11
---------------------------------------------------------------------------
 1037- 1068 (50.98/40.84)	GR....SQSNDGGISGDGFSAEsTASASECRDSSST
 1074- 1108 (48.61/17.29)	GEpispSQSSAGGSSSLKYGIR.MDEASERRLSQDT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.55|      23|      23|     293|     315|      12
---------------------------------------------------------------------------
  293-  315 (38.55/25.58)	SNAQNNLSRPTITEASA.MANVVQ
  316-  339 (38.00/25.09)	SRIPDNCGRMLIYPPEAvLVPVVQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.68|      26|      27|      91|     117|      13
---------------------------------------------------------------------------
   87-  115 (34.84/29.05)	WLfiPGQHSSVVEKAQSAVSKL..RVLaSGL
  116-  144 (36.85/25.39)	WV.aPGDSEEVAAALSQALRNCmeRTL.RGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.39|      33|      40|     712|     744|      14
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  712-  744 (57.34/40.83)	SSTQSRRYYTHIESGKEK.NDGKLSGSDHSCSTR
  754-  787 (50.06/34.52)	SGFNSTNSVKSIHNKTEKaNEALLKADSFGQSMR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.14|      26|     999|     390|     415|      17
---------------------------------------------------------------------------
  390-  415 (42.46/21.32)	VMRSNRRYNSSSNSNSSSVSSISTSS
 1391- 1416 (43.67/22.16)	VYNKARRISRGSSSDMVQSSSMSGRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.76|      23|    1133|     651|     677|      19
---------------------------------------------------------------------------
  651-  677 (36.12/30.19)	SHSIFRNPYVPksreVETANSSSNSYV
 1790- 1812 (41.65/24.82)	SQPGYLEGYTP....VKSLGSTSTSYI
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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 MDP12265 with Med13 domain of Kingdom Viridiplantae
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