<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 MDP32866

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEELHQACSSMLLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEDMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPTPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVTKAPSSPQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPSDKLRDDAVIPAEQENITSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVVSEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKAEDGASSVTVLSHEGEDAMSLFSPSVKDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKVSAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVLDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLIPPPSQPASALPPVTANAGNPNTPSSAPAAPTSSTMTATSTSAMSSAATTANSTLTTTATSSSSANVGSGIPTNKPSSFPSFSSMNNTTSASLPTQAPTVQNGQTGGQQQQPTLQAAGMSADTTSAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIVDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNSRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismAnas platyrhynchos platyrhynchos (Northern mallard)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Galloanserae> Anseriformes> Anatidae> Anatinae> Anas.
Aromaticity0.07
Grand average of hydropathy-0.405
Instability index50.88
Isoelectric point5.38
Molecular weight239690.81
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: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

>MDP32866
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     667.20|     203|     448|    1328|    1616|       1
---------------------------------------------------------------------------
  143-  370 (273.92/119.78)	KWFVKPY..EKDEKPI...NKSEHLSCSFTFFLHGDSNVCTSVEISQHQPV.YLLseehltlaqqsnspfqvilsPFGLNGTLTGQSFKLSDsstkKLIGEWkqfYPVTSNLKEGSEEK........QEDMDWEDDSLAAVEVLVAGVRMVYPACfvlVPQTDIPtPSTVGAS...HCSTtclgvhqvP....ASTRD.PAMSSVTLTpPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIP...............
  984- 1064 (69.59/ 8.00)	........................................................................................................................................................PFG...MPPSSAP.PSNSGAGilpSPST........PrfptPRTPRTPRTPRGAGG.PASAQGS.VKYENSDLY..................SPASTPStCRPLNSVEPATVP
 1360- 1576 (323.69/261.69)	RLMLEPYgsQRDVAYVvvcPENEALLNGAKSFFRDLTAIYESCRLGQHRPIcKLL....................PDGIMRVGPTASKKLSE....KLVTEW...FSQTANANNEAFSKlklyaqvcRYELGPYLASQPLDNSLLSQTNLIPPPS...QPASALP.PVTANAG...NPNT........P....SSAPAAPTSSTMTAT.STSAMSSAATTANSTLTTTATSSSSANVGSGIPTNKPSSFPS.FSSMNNTTSASLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     161.44|      49|      92|     423|     477|       2
---------------------------------------------------------------------------
  423-  472 (84.44/43.38)	RTN..CNCSRHKNLKPRNSGQQGQ.AP.PVGQQQQAAPKHKTNeKQDKGDKPQK
  514-  566 (77.00/34.16)	RTNdvAKTPQMHNAEMANSPQPPPlSPhPCDVVDEGVTKAPSS.PQHFYQMPTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.33|      17|      18|    1593|    1609|       3
---------------------------------------------------------------------------
 1593- 1609 (28.60/16.53)	QPTLQAAGMSADTTSAP
 1613- 1629 (29.73/17.50)	HPEVSESTMDRDKVGVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.53|      33|      40|    1117|    1156|       4
---------------------------------------------------------------------------
 1117- 1142 (43.31/25.70)	...............QEA..QYRCTCGFSAVMNRKFGNSSGLF
 1143- 1179 (36.58/40.51)	LEDELdILgrntecgKEA..EKR....FEALRATSVEHGSGGL
 1185- 1205 (26.65/13.91)	LPDEL.IL..........llQDQCTNLFS.....PFG......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.95|      12|      40|     708|     719|       5
---------------------------------------------------------------------------
  708-  719 (22.96/13.36)	LFPDSKKDRQNI
  749-  760 (21.99/12.45)	LFSPSVKDAQRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.52|      12|      41|     847|     858|       6
---------------------------------------------------------------------------
  847-  858 (25.08/14.02)	GF.SPMNMNNKEY
  888-  900 (19.44/ 9.10)	GFcSPKPAEIKDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.51|      11|      18|    1325|    1335|       7
---------------------------------------------------------------------------
 1325- 1335 (22.98/12.60)	YGTD...ESPEPLP
 1343- 1356 (17.52/ 7.46)	YDYDflvLSPFALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.59|      36|     449|     793|     845|       9
---------------------------------------------------------------------------
  799-  803 (-7.40/ 6.06)	....................................SKRTV
  813-  845 (45.37/26.45)	KEAKAGNLD.PLSCisTADLHKM.YPTPPSLEQHI......
 1264- 1302 (51.61/23.91)	HWSKRNVLDvSMQC..SQDILRMlLSLQPVLQDAIqKKRTV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.23|      20|     265|     657|     677|      15
---------------------------------------------------------------------------
  657-  677 (31.08/25.69)	LMVQCRKPLKVSDELVQQyQS
  924-  943 (39.14/26.67)	LPSQCLPPIKLPEECIYR.QS
---------------------------------------------------------------------------




































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 MDP32866 with Med13 domain of Kingdom Metazoa
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