<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 MDP12327

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVLEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGFQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFNSDAKVNSTDGSWLDANITRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKISGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQIGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLGKQQEVIKSTAVANQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGKRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTQKANEVLLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNLSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGNLMAESSKLLLDDGTSGNFMQSSASSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGASLQQQEIGLIQERALPSSPSPLYSPHSKVSSFMKGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMLQADIVSHGTSQSSGVLSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARGISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGASSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1957
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-0.212
Instability index54.01
Isoelectric point5.49
Molecular weight211556.22
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

>MDP12327
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.50|      20|      45|     416|     435|       1
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  416-  435 (34.82/23.44)	VDQSQ....ND..NLKAGFKRSRTGI
  458-  483 (28.68/17.77)	VNNSAitggNDqiGLQWGWDDDDRGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     201.03|      64|      78|     831|     907|       2
---------------------------------------------------------------------------
  831-  897 (105.75/67.57)	VRIAGDIDGGllDGTLN..APVGVWRSvGVSKGMKQPSS..ALEACHSVQHNS.....FIEE.SMLAYGLRQPLQEL
  912-  952 (59.07/40.19)	VDVALDADNN..DGPYGwlALQEQWRR.GFSCG...PSM..VHAGCGGV............................
 1702- 1746 (36.21/12.64)	................................GMGQPSTrkQLIGGQGMVDNSrgllqWVQSiSFVSVSIDHSLQLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     379.19|     115|     124|    1417|    1539|       3
---------------------------------------------------------------------------
 1375- 1414 (25.40/ 6.23)	......................................................................................GSSSDMVQ......SSS..MSGRSH..P.VLMQMTSPVPGmwKDCVGPRSI
 1417- 1539 (181.11/148.12)	SLQREAELDASLRsgsW..DNWQTSRGGSLGCDPNRIGDFSIQDEVRYLfEPLYI.LAEPGSLDRGLSFPMSGnlMAESSKLLLddGTSGNFMQ......SSA..SSGGGDTGP.NTQSETSEPDG..SGSAHQKSL
 1541- 1668 (172.69/116.61)	SLHCCYGWTEDWR...WlvCIWTDSRGELLDNYIYPFGGISSRQDTKGL.QSLFVqILQQGCQILQACPPESA..IAKPRDFVI..ARIGSFFElecqewQKAlyAIGGSEVKKwSLQLRRSVPDG.mSASSNGASL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.29|      20|      78|    1223|    1246|       4
---------------------------------------------------------------------------
  110-  134 (25.08/ 7.72)	LASGlWvapgDSEEVAAALSQALRN
 1223- 1242 (36.21/26.16)	LSNG.W....DLESYLKSLSKVLRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.66|      17|     121|    1128|    1145|       7
---------------------------------------------------------------------------
 1128- 1145 (33.51/23.56)	PFEPYAMPKHMsYYVVCP
 1253- 1269 (35.16/20.14)	PKEGSTGPCTV.IYVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     141.74|      36|     125|     958|     993|       8
---------------------------------------------------------------------------
  958-  993 (57.44/42.67)	SLDIAGVELIDPLSADVQASFTLTLLQND.IKTAMKS
 1048- 1072 (30.22/17.61)	..........EPISPS.QSSAGGSSLKDG.IRVDEAS
 1085- 1120 (54.08/39.58)	SEQLPGSRLRPTLSA.VPYPAILVGYQDDwLKTSPSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.81|      16|     827|     376|     391|      14
---------------------------------------------------------------------------
  376-  391 (28.11/13.91)	SSSVSSVSTS..SSDSDY
 1202- 1219 (24.70/11.24)	SMKIDSSSTSmlGSISDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.78|      36|     635|    1157|    1195|      16
---------------------------------------------------------------------------
 1157- 1195 (53.80/46.44)	FFQQLGTVYETCkLGTHSPQcMGNEMEiDSGKNV..SSGFV
 1795- 1832 (60.98/37.23)	FLPPVGLQLRTC.LTAESPP.LAHLLH.SKGCAIplSTGFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.16|      34|     976|     300|     333|      17
---------------------------------------------------------------------------
  300-  333 (65.20/43.08)	P.PEAILVPVVQTACARSSL.......KRFWLQNWIGPSLSF
 1271- 1312 (46.97/28.76)	PePLAVLQTVVESSIAVGSVvlssdkeRRSTLQNQVGKALSY
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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 MDP12327 with Med13 domain of Kingdom Viridiplantae
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