<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 MDP28284

Description Mediator of RNA polymerase II transcription subunit 13
SequenceADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLAEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNNPFQVILSPFGLNGTLTGQAFKMSDSSTKKLIGEWKQFYPISSCLKEVSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSTTCLGVHQVPASSRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFPSVSDGFNSDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSASSSGMCEEETANKVASWDFVEATQRTSCSCSRHKNFKARNSGQQGQAPPVGQQQQAAPKHKANEKQEKSEKPQKRPLTPFHHRASISDDTMESDTASQRLVISAPDSQVRFSNIRTNDVAKTPQMHSTEIANSPQPPPLSPHPCDVVDEAVTKTPSTPQSQHFYQMPTPDPLVPTKPLEDRIDGLSHSFPAQFPEVLEPTVYVGTAVNLEEDEDHRTWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPAGQESVTSVTELMVQCKKPLKVSDELVQQYQSKNQYLSAVVSDMEQEPEIDPYAFVDGDVREPGKKHKAEDGTSNVTVLSHEEDAMSLFSPSVKQDAQRPGGHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKTLNGSDEKSNCKESKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSIDTTPGGTILDGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKLENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPPGPTMPFIKEGDGSAIDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLYKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDIIGRNTECGKEAEKRFEALRATSVEHVSGGLKETEKLPDELILLLQDQCTNLFSPFGAADQDPIPKIGVISNSVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDETLVKTTCLHPWAKRNAVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKTFFRDLTAIYESCRLGQHRPISRLLADGIMRVGSTASKKLSEKLVTEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLTQPNLVVPTSQSLTTPPQLSNTGNSNTPSATPATTTSSTMTMTSCSSSAVTTTNSTLTTTSSSSSSTNINSGMSANKQTSFPPFGSMNSAAAGSMSTQTARLQCVQLQQEASQQSLPASLPAPLPPLNSSTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESSNSNVWTLGLLRCFLEMVQTLPPNLKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNTNNDGADGIGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQHQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2127
PositionMiddle
OrganismSarcophilus harrisii (Tasmanian devil) (Sarcophilus laniarius)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Dasyuromorphia> Dasyuridae> Sarcophilus.
Aromaticity0.07
Grand average of hydropathy-0.409
Instability index52.55
Isoelectric point5.49
Molecular weight234476.04
Publications
PubMed=21709235

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	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

>MDP28284
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     328.75|     105|     206|     294|     420|       1
---------------------------------------------------------------------------
  294-  408 (162.73/96.34)	RDPAMSSVTLT.....PPTSPEEVQTVDaqsaqKWV.KFPSV..SDGFNSDSTShhGGKIPRKLANQVVDRVWQE..CNMNRAQNKRKYSASSSGMcEEETANKvaSWDFVEATQRTSCSCSRHK
  495-  609 (166.01/76.97)	KTPQMHSTEIAnspqpPPLSPHPCDVVD.....EAVtKTPSTpqSQHFYQMPTP..DPLVPTKPLEDRIDGLSHSfpAQFPEVLEPTVYVGTAVNL.EEDEDHR..TWKYYKVPKKKDVEFLPPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     222.17|      71|     202|    1622|    1716|       2
---------------------------------------------------------------------------
  119-  156 (50.43/19.23)	KWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSV..................................
 1646- 1716 (125.81/126.49)	QYLLQPVKHEDRQIYTQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLAMETA.LKSPDRPECIRLYTPP
 1879- 1917 (45.93/18.83)	.................................MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     334.77|      84|     207|     713|     852|       3
---------------------------------------------------------------------------
  633-  709 (124.79/41.11)	ELMVQCKKPLKVSDELVQQYQSKN...QYLSA........V.VSDMEQ....EPEIDPY..AFVDGDVREPGKKHKAEDGTSNVTVLSHEEDAMS
  756-  840 (144.19/122.39)	ELTPGSKKTLNGSDEKSNCKESKAgNLDPLSC........ISTADLHKMYPTPPSLEQH..IMGFSPMNMNNKEYGSIDTTPGGTILDGNSSSIG
 1052- 1113 (65.79/13.22)	.........................NFD..SCcicvcnmnIKGADVGVYIPDPTQEAQYrcTCGFSAV.MNRK.FGN....SSGLFLEDELDIIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     156.56|      33|      35|     914|     948|       6
---------------------------------------------------------------------------
  914-  946 (63.27/28.25)	LPPGPTMPFIKEGDG...SAIDQE.YGPAYTPQT.HTP
  949-  984 (50.34/25.77)	MPPS.SAPPSNSGAGilpSPSTPR.FPTPRTPRTpRTP
  986- 1016 (42.95/18.03)	...GAGGPASAQGSV...KYENSDlYSPASTPST.CRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     272.88|      72|     493|    1467|    1583|       7
---------------------------------------------------------------------------
 1384- 1448 (100.47/42.06)	GSTASKKLSEKLVTEWFSQAADGNNEAFSKL...KLYAQVCRYDLGPYLAS..QPLDSSLLTQPNLVVPT...
 1511- 1583 (119.04/122.17)	GMSANKQTSFPPFGSMNSAAAGSMSTQTARLqCVQLQQEASQQSLPASLPAPLPPLNSSTMDRDKVGIPTDGD
 2038- 2077 (53.37/14.01)	................................CPQAQHQ.CPLFLKASLHLHVPSVQSDELLHSKHSHPLDSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.50|      15|      15|    1473|    1487|       8
---------------------------------------------------------------------------
 1473- 1487 (28.81/16.35)	TTTSSTMTMTSCSSS
 1490- 1504 (25.69/13.69)	TTTNSTLTTTSSSSS
---------------------------------------------------------------------------




































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 MDP28284 with Med13 domain of Kingdom Metazoa
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