<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 MDP26931

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEDMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGTSHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRTQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMHNAEMANSPQPPPLSPHPCDVVDEGVNKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFPEVIEPTMYIGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENITSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVVSEADQEPEIDPYAFVEGDVEFLFPDSKKDRQNIERETGKKHKAEDGTSGVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLIHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSMGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPGSAPPSNGGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSAGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLAQTNLVPPSSQPASALPPLTASTGNPNTPSAPAASTSSTMTATSNSAMSSAATTANSTLTTTATSSSSANIGSGIPTNKPSSFPPFSSMNNTTSASLPSQAATVQNGQTGGQQQQPVLQTAGMSGDATTAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPSSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2181
PositionMiddle
OrganismGallus gallus (Chicken)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Galloanserae> Galliformes> Phasianidae> Phasianinae> Gallus.
Aromaticity0.07
Grand average of hydropathy-0.416
Instability index51.84
Isoelectric point5.40
Molecular weight240030.16
Publications
PubMed=15592404

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
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

>MDP26931
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     269.07|      53|      67|     454|     506|       1
---------------------------------------------------------------------------
  454-  506 (91.64/45.88)	PKHKTNEKQDK..GDK.PQKRPLT.P..FHHRVSIS....DDVAMEADSA..SQRLV.MTAPDSQV
  520-  575 (75.81/36.63)	PQMHNAEMHNAemANS.PQPPPLS.P....HPCDVV....DEGVNKAPSTpqSQHFYqMPTPDPLV
  577-  616 (29.28/ 9.42)	....TKTMEDR..LDGlSQPFPAQfPevIEPTMYIG....TAVNLEEDEA................
 1597- 1647 (72.34/34.60)	PVLQTAGM..S..GDA.TTA.PAQ.P...HPEVSEStmdrDKVGVPTDGD..SH..A.ITYPPAIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.26|      26|     113|     828|     874|       2
---------------------------------------------------------------------------
  828-  857 (45.16/64.79)	PlsciSTADLHKM.YPTPPSLEQHIMG...FSPM
  898-  927 (39.11/13.81)	P....KPAEIKDYsYVYKPENCQALVGcsmFAPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     320.06|      98|     534|     657|     766|       3
---------------------------------------------------------------------------
  630-  668 (47.91/27.22)	.........................................DVEFLPP....QLPND........KL...RDD............................PVIPAGQENI.....TSVTELMVQCRK
  669-  783 (142.63/127.84)	PLKVSDELVQQYQSKNQYLAAVVSEADQEPEIDPYAFV.EGDVEFLFP....DSKKD........RQNIERETGkkHKAEDGTSGVTVLSHegedamslfsPSVKQDAQRIaaharTASTSLIHETDL
  937-  971 (30.71/10.07)	PIKLPEECIYR.QS......WTVGKLDLLPPGPAMPFIkDGD......................................................................................
 1188- 1270 (98.81/63.77)	PEKLPDELILLLQDQCTNLFSPFGAADQ....DPIPKV..GAVSNLVRveerDCCNDcylalehgRQFMDNMSG..GKVDEALVKTTCLHH.....................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.58|      18|      19|    1473|    1490|       4
---------------------------------------------------------------------------
 1473- 1490 (33.01/16.09)	SQPLDN..SLLAQT.NLVPPS
 1491- 1511 (24.57/10.08)	SQPASAlpPLTASTgNPNTPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.57|      21|      68|     979|     999|       5
---------------------------------------------------------------------------
  979-  999 (44.54/22.83)	YGPAY.TPQT.HTPF.GMPPGSAP
 1012- 1033 (28.07/11.33)	STPRFpTPRTpRTP..RTPRGAGG
 1049- 1070 (33.96/15.44)	YSPAS.TPST.CRPLnSVEPATVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.53|      23|     535|    1295|    1317|       7
---------------------------------------------------------------------------
 1295- 1317 (42.26/29.73)	VLQDAIQKKRTVRSWGVQGPLTW
 1831- 1853 (42.26/29.73)	VPNRARRKKGSARRLGLQKLWEW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.47|      36|     526|    1116|    1159|       9
---------------------------------------------------------------------------
 1116- 1159 (52.07/69.70)	VYIPDP.TQEAQYRCTCGfSAVMnrkfgnSSGL...FLEdELDILGRN
 1648- 1687 (56.40/43.71)	VYIIDPfTYEKKDENSSS.SSLW......TLGLlrcFLE.MVQVLPPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     169.16|      50|     257|      46|      97|      10
---------------------------------------------------------------------------
   46-   97 (90.56/67.87)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH
  312-  363 (78.60/52.28)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.51|      11|      20|    1329|    1339|      11
---------------------------------------------------------------------------
 1329- 1339 (22.98/10.98)	YGTD...ESPEPLP
 1347- 1360 (17.52/ 6.48)	YDYDflvLSPFALP
---------------------------------------------------------------------------




































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 MDP26931 with Med13 domain of Kingdom Metazoa
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