<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 MDP26980

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISSCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSASCLGVHQVPPSTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWIKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEETADKIASWDFVEATQRTNCSCLRHKNLKPRNPGQGQTPSLSQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPVEDRIDSLSQSFPAQFQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDLEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLAAIASDSEQEPKIDPYAFVEGDEEFLFPDKKDRQNNEREAGKKHKVEDGPSNVTVLSHEEDAMSLFSPSIKQDAPRATNHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKSSCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGTQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECVYRQSWTLGKLELLPSGPTMPFIKEGDGSTMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTECGKEAEKRFEALRATSAEHVNGGLKESEKLPDELILLLQDQCTNLFSPFGAADQDPFPKIGVINNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDFDFLVLSPFALPHWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLCQPNLVAPTSQSLITPPQMTSAGNANTPSATLASAASSTMTMTSGVAMSSSVATANSTMTTTSASSSSSSNLNSGISSNKLPSFPPFSSMTSSAAGSMSSQVTAVQNGQLGGQPSSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTADDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2173
PositionMiddle
OrganismSus scrofa (Pig)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Artiodactyla> Suina> Suidae> Sus.
Aromaticity0.08
Grand average of hydropathy-0.402
Instability index52.63
Isoelectric point5.42
Molecular weight239452.60
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl
transcription coregulator activity	GO:0003712	IBA:GO_Central

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
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
triglyceride homeostasis	GO:0070328	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26980
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     139.94|      22|     205|     313|     338|       1
---------------------------------------------------------------------------
  313-  334 (35.78/10.31)	PSTRDPA....MSSVTLTPPTSPE.EV
  519-  540 (42.77/14.76)	PQMHGTE....MANSPQPPPLSPH.PC
  551-  574 (26.12/ 7.85)	PSTPQSQhfyqM...PTPDPLVPSkPV
 1006- 1027 (35.27/ 9.99)	PRFPTPR....TPRTPRTPRGAGG.PA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.57|      39|      39|    1492|    1530|       2
---------------------------------------------------------------------------
  965-  984 (23.77/ 7.83)	.............................STMDQEYGPAYTPQT.HTSFG
 1492- 1530 (63.31/33.81)	MTSAGNANTPSATLASAAS..........STMTMTSGVAMSSSV.ATANS
 1532- 1580 (44.49/21.44)	MTTTSASSSSSSNLNSGISsnklpsfppfSSMTSSAAGSMSSQVtAVQN.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.27|      26|      27|     904|     930|       3
---------------------------------------------------------------------------
  904-  930 (46.94/34.13)	PENCqVLVGCSMFAPLKTLPS.QCLPPI
  933-  959 (46.33/28.57)	PEEC.VYRQSWTLGKLELLPSgPTMPFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.94|      23|      40|    1755|    1778|       4
---------------------------------------------------------------------------
 1755- 1778 (38.36/25.28)	CIRlYTPPFILAPVKDKQTELGET
 1794- 1816 (43.59/24.77)	CLS.HDQRWILASCTDLYGELLET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     140.20|      39|      40|    1115|    1154|       5
---------------------------------------------------------------------------
 1095- 1113 (22.49/ 7.83)	......CVCN....MNIK.GA.DVGV....YIPDP..........
 1115- 1154 (69.07/44.00)	QEAQYRCTCGFSAVMNRKFGN.NSGL....FLEDELdIIGRNTEC
 1156- 1195 (48.64/25.82)	KEAEKR....FEALRATSAEHvNGGLkeseKLPDEL.ILLLQDQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     256.40|      78|     316|    1616|    1698|       6
---------------------------------------------------------------------------
 1616- 1698 (135.22/85.83)	MDRDKVGIPTDGD.SHAITYPPAIVVYIIDP.FTYENKDESTNSSNVWTLGL.LRCFLEMVQTLPPHIkstvsVQIVPCQYLLQPV
 1943- 2023 (121.18/68.25)	MQTSQLNTPQDTScTHILVFPTSASVQVASAtYTTENLDLAFNPNNDGADGMgIFDLLDTADDLDPDI.....INILPASPTGSPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.54|      66|     316|     417|     517|       7
---------------------------------------------------------------------------
  149-  233 (99.06/48.70)	KDEKPINKSEHLSCSftfflhgdsnvctsveINQHQPVYllsEEHITLAQQ..SNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLI
  430-  497 (111.48/93.91)	KNLKPRNPGQGQTPS................LSQQQQVL...PKHKTNEKQekSEKPQKRPLTPFHHRVSVSDDVGMDTDSASQRLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.95|      22|      40|    1251|    1272|       8
---------------------------------------------------------------------------
 1251- 1272 (39.20/21.84)	DEALVKSSCLHPWSKRNDVSMQ
 1289- 1310 (40.75/23.01)	QDAIQKKRTVRPWGVQGPLTWQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.25|      34|      40|     701|     736|       9
---------------------------------------------------------------------------
  701-  736 (54.38/33.49)	EGDEEFLF.PD.KKD..RQNNEREAGKKHKVEDgpSNVTV
  740-  777 (45.87/21.99)	EEDAMSLFsPSiKQDapRATNHARPPSTSLIYD..SDLAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.21|      21|     715|     857|     894|      10
---------------------------------------------------------------------------
  862-  885 (32.96/27.62)	TPGgtvLEGNSSSIGTQFKIEVDE
 1593- 1613 (39.25/10.95)	TAG...ISGESSSLPTQPHPDVSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     169.57|      41|     414|     355|     398|      11
---------------------------------------------------------------------------
  355-  396 (72.39/43.60)	FNSDSTS..HHGGKIPRKLANHVVDRvWQECNMNRAQNKRKYSA
  786-  823 (62.50/32.45)	FNSDEDE..LTPGS..KKSANGSDDK..SSCKESKTGNLDPLSC
  825-  854 (34.67/15.65)	....STAdlHKMYPTPPSLEQHIMG..FSPMNMN...NK.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.56|      27|      29|    1832|    1858|      13
---------------------------------------------------------------------------
 1824- 1855 (46.38/24.73)	PNRarrkkGSARRFGLQKLWEW.C.LGLVQMSSL
 1856- 1887 (39.18/19.86)	PWR..vviGRLGRIGHGELKDWsClLSRRNLQSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.12|      31|     715|     624|     660|      14
---------------------------------------------------------------------------
  624-  660 (47.51/47.58)	DLEFL...PPQLPS.DKFKDDPVGpfGQESVTSVtelmVQC
 1340- 1374 (49.62/31.03)	DFDFLvlsPFALPHwERLMLEPYG..SQRDIAYV....VLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.75|      26|      41|    1407|    1432|      15
---------------------------------------------------------------------------
 1407- 1432 (41.52/21.60)	SRL.LTDGIMR..VGS.TASKKLSEKLVAE
 1446- 1475 (32.23/15.21)	SKLkLYAQVCRydLGPyLASQPLDSSLLCQ
---------------------------------------------------------------------------




































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 MDP26980 with Med13 domain of Kingdom Metazoa
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