<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 MDP30195

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFTDLIHHDLSEEEDGIWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPITSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDVPAPSTVGVSHCATACLGVHQVPASTRDPVMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFSSDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCVEETADKVASWDFVEATQRTNCNCSRHKNLKPRSLGQQGQAPPVGQQQQAAPKHKTNEKQEKGDKPQKRPLTPFHHRASISDDVAMEVESASQRLVMTAPDSQVRFSNMRTNNDVAKTPQMHGAEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPTKTMEDRIDPLSQPFPPAFPEVLEPTVYVGTAMNLEEDDANTTWKFYKVPKKKDVEFLPPQLPSDKFRDDPVGPAGHDNVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLVAIVSEADQEPENDPYAFVDGDVEFLFPDNKKDRQNSEREVGRKHKAEDGTSAVTVLSHEGEDAMSLFSPSVKQDAQRLAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGSDDKSNCKESKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTILEGNSSSVGVQFRIEVDEGFCSPKPSEIKDFSYVYKPENSQAFVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPTMPFIKEGDGSTMDQEYGPAYTPQTHTPFGMPPNSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPAPEPQYRCTCGFSAVMNRKFGNNSGLFLEDELDILGRNTECGKEAEKRFEALRAACVERGGGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKVGAVNNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRIVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVVCPENEALLNGAKSFFRDLTAVYEACRLGQHRPICKLLSDGIMRVGSTASKKLSEKSVTEWFSQATNANNEAFSKLKLYAQVCRYDLGPYLASQPLDNSLLCQPNLVPPTSQSASAQPLVAGNTGNSNTPASSTAAATSSAMTVTSNSAISSAATTTNSTLTTTAPSSSSTNIGSGISTNKSSSFPPFSSMNSTSSASLPTQATAVPNGQTGGQQQQPAHQVAGISGETSSVPPQPHPEVSESTMDRDKVGVPTDGDSHAVSYPPAIVVYIIDPFTYEKKDEQNNSSNVWTLGLLRCFLEMVQILPPNIRSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSGLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNANNDGADIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPPGGEMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPEWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2177
PositionMiddle
OrganismPelodiscus sinensis (Chinese softshell turtle) (Trionyx sinensis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Testudines> Cryptodira> Trionychia> Trionychidae> Pelodiscus.
Aromaticity0.07
Grand average of hydropathy-0.409
Instability index50.29
Isoelectric point5.46
Molecular weight239631.59
Publications
PubMed=17381049
PubMed=23624526

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:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
cholesterol homeostasis	GO:0042632	IEA:Ensembl
negative regulation of DNA-binding transcription factor activity	GO:0043433	IEA:Ensembl
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
triglyceride homeostasis	GO:0070328	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP30195
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     650.16|     262|     715|     779|    1105|       1
---------------------------------------------------------------------------
  286-  496 (247.29/102.37)	...............................PQTD.V.P............APSTVGVSHCATAclgvhqvPASTRDPV......................................................................................................................................................................................................................................mssvtLTpPTSPEEVQTVDAQSAQKWVKFSSVsDGFSSDSTS..HHGGKIPRKLANQVVDrvWQECNMNraqNKR..KYSATSNGLCVEETADKVASWDFVEATQRTncnCS.RHKNLKPRSL...GQQGQApPVGqQQQAAPkHKTNEKQEKgdKPQKRP.....................LTPFHHRasiSDDVAMEVESASQR
  501-  663 (77.93/16.57)	APDSQVRFsNMRTNndvAKTPQMHGAEMANSPQPPPLsPHPcdvvdegvtKTPSTPQSQHFYQM.......PT..........PDPLVPTKTmEDRIDPLSQPFPPAFPEVLEP.TVYVGTAMNleeddanttwkfykvpkkkdveflppqlpsdkfrddpvgpaghdnvTSVTELMVQCR..............................................................................................................................................................................................................................................................................................................................................
  797-  979 (202.17/133.93)	.....................................................................................................................................................................................kplkvsdelvqqyqsknqylvaivseadqependpyafvdgdveflfpdnkkdrqnserevgrkhkaedgtsavtvlshegedamslfspsvkqdaqrlaahartastslfhetdlvvsytdldnlfnsdedeLT.PGSKRTVNGSDDKSNCKESKAGNL.DPLSCISTAdlHKMYPTPPSLEQHIMG..FSPMNMN...NKEygSMDTTLGGTILEGNSSSVGVQFRIEVDEGF...CSpKPSEIKDFSYvykPENSQA.FVG.CSMFAP.LKTLPSQCL..PPIKLPeeciyrqswtvgkldllppgpTMPFIKE...GDGSTMDQEYGPAY
  980- 1092 (122.77/60.90)	TPQTHTPF.GMPPN...SAPPSNSGAGILPSPSTPRF.PTP.........RTPRTPRTPRGAGG.......PASAQGSVkyenSDLYSPAST.PSTCRPLNSVEPATVPSIPEAhSLYVNLILS..............................................ESVMNLFKDCN..............................................................................................................................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.47|      14|      15|    1587|    1600|       2
---------------------------------------------------------------------------
 1587- 1600 (26.52/14.48)	GQTGGQQQQPAHQV
 1605- 1618 (26.95/14.86)	GETSSVPPQPHPEV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.35|      31|     201|    1732|    1762|       6
---------------------------------------------------------------------------
 1732- 1762 (55.34/34.32)	LPTSTNVKTLTGFGPGLAMETA.LKSPDRPEC
 1932- 1963 (51.01/30.98)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.27|      20|      21|    1358|    1377|       8
---------------------------------------------------------------------------
 1358- 1377 (38.07/20.75)	PYWERLMLEPYGSQRDIAYV
 1381- 1400 (33.19/17.19)	PENEALLNGAKSFFRDLTAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.67|      13|     424|    1544|    1557|       9
---------------------------------------------------------------------------
 1529- 1541 (20.91/ 9.56)	SSAATTTNSTLTT
 1545- 1557 (21.76/ 8.25)	SSSSTNIGSGIST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     314.22|     105|    1287|     113|     245|      10
---------------------------------------------------------------------------
  113-  245 (156.37/173.84)	YE.CRTLLFKAVHNLLERCLMnrnfvRIG.............KWFVKPYEKDEKPINKsehlscsftffLHGDSNVCtSVEINQH...QPV..YLLSEEHLT.LAQQSNSPFQVILSPFGlNGTLTGQSFKLSDSSTkkligewkqfYPITSN
 1401- 1525 (157.85/109.67)	YEaCRLGQHRPICKLLSDGIM.....RVGstaskklseksvtEWFSQATNANNEAFSK...........LKLYAQVC.RYDLGPYlasQPLdnSLLCQPNLVpPTSQSASAQPLVAGNTG.NSNTPASSTAAATSSA..........MTVTSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.46|      20|      78|     626|     645|      11
---------------------------------------------------------------------------
  626-  645 (39.18/21.61)	DVEFLPPQLPSDKFRDD.PVG
  705-  725 (30.28/14.87)	DVEFLFPDNKKDRQNSErEVG
---------------------------------------------------------------------------




































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 MDP30195 with Med13 domain of Kingdom Metazoa
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