<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 MDP28114

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHNELSSEEDGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKTINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLNEEHISLAQQNSSPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPKTKKVQEDKMEDTDWEDDSLAAVEILVAGVRMVYPSCLVLLPLSDLPAVVPQGSVNTSGSLCGAQQGQAANRDPAMSSVTLTPPTSPEEAQTVVFPYCTDYQPSQKWLKLSSVSDGYSSNNTLHGGKIPRGLASQMVESVWQEYNINRTGNKRKFTGLTNGTAEEESDNTGLWDFVECTHRPHCNCSRHKNPKQRASSASGHPPSSGLPAQSAPKHKLGEKLEKVEKQQKRPQTPFHHRNSVSEEPSLEPQTQRLCLRSQEEGSYPSLHHVDTVSSKAPTLHTHGPSGDLAGSPPPPPLSPHPCDHADGGMTPSEMKNSSTPIHQQFYPPSVEPCLLPQKGTSEEPQLENVPMPLPFPPAFSETLEPTVFAGSAINPNEDSTHNPWKYFNLPRKKASSFLTPQLPVDKIRGDSGGSGGTESVVSVTELMSGSMQPLKVSQELIKTYAQRRNSHLVSASGDGEYGEDPDPYAFEEGDDEFSFSDKKDKAGAERDGNKKPHVYSLASFAPCFNLISSSLGLLRLFCVADGQGPSGSKPAASTSLIHENDLAVSYSDLDKIFNSDEDELALESKRAGVGKDDKFGCKDNKAATTDPLSCISSADLHQMFPTPPSLEQQGYSPMNSGSKDSLEAGTSLALLDGSQLNNHFKMEVEEGFCSPKPSEIKDFSFVFKPESCQLLIGCSMYAPLKMLPSQCLLPIKLPEDCVYTPSWTMGKMELIPPVTNVNLLTKDSNVPSVEPDYSQTYTPQTHTPFMSSSAPPSNSGTGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDNSDLYSPASTASTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGEAQYPCTCGFSAVANRRFGQSAGLFLEDELDVVVRGSDASRDTERCFEELRSSTAHKAGSLTEKPPDELILLLQDQCTNPFAPMAGVEYPKRGSVPSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHQWPKSADMSKLFSQDVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYVVVCPENEALLRGAKSFFKDLSAMYEACQLGQHRPICKSHPEGVLKVGTTEGRSMTEQPLSDWFLKMAAKDGNNEAFNKLKLFAQVCRYDLAPYLSEQSLDSSLLSQRGPVVASPSSQTSSSASTSSGPPSTNTTSSSTSSAPPAQINSTPPSSTSGSQTVGGMALAKPSSYTPFGTAGMQGSTSQNGPQLNPQGPGGLAENGPSANQPPGPTEAPESTMERDKVGKPTDGESHAVSYPPAIVVYIVDPFSYEDADREVHSSAYTLGLLRCYMEMLQFLPARIRNAVSVQIVPCQYLLQPVRSGERHLYGQHLKSLAFSVFTQCRRPLPNSTNFKALTGFGPGLAIDMALRNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLETCIISIDVPNRARRKKGSARRVGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRLCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDINFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGSHFHQGGDGGKGQSADRMESHEEALNILQQPMALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLTQMYNFIKNML
Length2144
PositionMiddle
OrganismGasterosteus aculeatus (Three-spined stickleback)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Perciformes> Cottioidei> Gasterosteales> Gasterosteidae> Gasterosteus.
Aromaticity0.08
Grand average of hydropathy-0.416
Instability index55.85
Isoelectric point5.66
Molecular weight235337.62
Publications









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	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28114
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     142.03|      35|      35|    1532|    1566|       1
---------------------------------------------------------------------------
 1027- 1057 (43.77/16.88)	.R.TPRTPRGPSSVQGSLKYDNSDLYS..PASTAS
 1518- 1539 (35.70/12.25)	AQINSTPPSSTSG.............SQTVGGMAL
 1540- 1574 (62.56/27.65)	AKPSSYTPFGTAGMQGSTSQNGPQLNPQGPGGLAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.40|      31|      35|     480|     513|       2
---------------------------------------------------------------------------
  480-  504 (42.04/14.29)	................................F.HHRNSV.SEEPSLEPQTQRLCLRSQ
  506-  534 (32.34/10.64)	EGSYP....S.......................lHHVDTVsSKAPTLHTHGPSGDL...
  535-  583 (28.02/ 8.50)	AGSPPppplSphpcdhadggmtpsemknsstpI.HQQ....FYPPSVEP.....CLLPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.87|      14|      31|     701|     716|       3
---------------------------------------------------------------------------
  701-  716 (23.09/17.59)	ASGDGeyGEDPDPYAF
  734-  747 (25.78/12.61)	AERDG..NKKPHVYSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     138.99|      34|      36|      30|      64|       4
---------------------------------------------------------------------------
   22-   60 (62.43/37.72)	LA.DltgikWRRFVWQGPTSSPI.LFPVTEEDPILCSFSRC
   61-   91 (33.19/20.32)	LAaD.vlsvWRRH..HTPGRRELwLF.WWGDDP...SF...
  911-  937 (43.38/23.22)	............FVFK.PESCQL.LIGCSMYAPLKMLPSQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.86|      15|      33|     977|     994|       5
---------------------------------------------------------------------------
  602-  616 (25.45/11.37)	P...PAFSET.LEPTVFAG
  977-  994 (24.65/18.11)	PsvePDYSQT.YTPQTHTP
 1001- 1016 (23.75/10.01)	P...PSNSGTgILPSPATP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.05|      46|     484|     640|     687|       6
---------------------------------------------------------------------------
  640-  687 (69.70/38.94)	ASSFLTPQLPVdKIRGDSGGSGGT...ESVVSVTELMSGSMQPlKVSQELI
 1145- 1193 (71.35/33.03)	AGLFLEDELDV.VVRGSDASRDTErcfEELRSSTAHKAGSLTE.KPPDELI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     113.40|      35|     119|    1309|    1352|       7
---------------------------------------------------------------------------
 1309- 1352 (50.64/57.06)	PLT.WqqFHKMAGRGsyGTDESPEPLPIptFLVGYEYDfvvLSPF
 1432- 1467 (62.75/38.39)	PLSdW..FLKMAAKD..GNNEAFNKLKL..FAQVCRYD...LAPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.15|      15|     119|     321|     335|       8
---------------------------------------------------------------------------
  321-  335 (27.94/13.86)	SSVTLTPPTSPEEAQ
  441-  455 (26.21/12.46)	SSASGHPPSSGLPAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     227.57|      72|      84|     748|     822|       9
---------------------------------------------------------------------------
  748-  822 (108.25/72.75)	ASFAPcFNLISSSlGLLRLFCVA...DGQGPSGSKPAASTSLIHENDLA.VSYSDLDKIFNSDEDElALESKRAGVGKD
  833-  908 (119.32/67.44)	ATTDP.LSCISSA.DLHQMFPTPpslEQQGYSPMNSGSKDSLEAGTSLAlLDGSQLNNHFKMEVEE.GFCSPKPSEIKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.76|      31|     207|    1468|    1502|      12
---------------------------------------------------------------------------
 1468- 1502 (45.10/34.61)	LSEQSLDS...SLLSQ.RGPVvasPSSqTSSSASTSSGP
 1681- 1715 (49.66/26.54)	LYGQHLKSlafSVFTQcRRPL...PNS.TNFKALTGFGP
---------------------------------------------------------------------------




































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 MDP28114 with Med13 domain of Kingdom Metazoa
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