<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 MDP27267

Description Mediator of RNA polymerase II transcription subunit 13
SequenceLGARWIPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNLFLIFLNTTYSKKRKMEYGRMAYPMSAVLCSKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSSTKKLIGEWKQFYPISSCLKEVSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGAPHCSTTCLGVHQVPASSRDPAMSSVTLTPPTSPEEVQSVDAQSAQKWAKFSSASDAFSSDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSASSSGLCEEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQVPPVGQQQPVAAKHKTNEKQEKGDKPQKRPLTPFHHRASISDDVAMETDSSSQRLVIPAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVADEGVTKTPSTPQSQHFYQMPTPDPLVPSKPVEDRIDSLSQPFPAQFPEVIEPTVYVGTAVNLEEEEADSTWKYYKVPKKKDVEFLPPQLPSDKFRDDPVGPAGQESVTSVTELMVQCKKPLKVSDELVQQYQSKNQYLSAVVSDAEQEPEIDPYAFVDGDVEFLFPDNKKERQNTEREVGKKHKAEDGSSSVTVLSHEEDAMSLFSPSIKQDAQRPSGHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKILSGTDDKSNCKESKTGNLDPLSCISTADLHKMYPTPPSLEPHIMGFSPMNMNNKEYGSMDTTPGGTILEGNSSSIGTQFKIEVDEGFCSPKPSEIKDFSYIYKLENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPPGPAMPFIKEGDGSAMDQEYGAAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYDNSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLYKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIVGRNTECGKEAEKRFDALRATSAEHVSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPAPRIGIISNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSTCLHPWSKRNAMDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLSDGIMRVGSTASKKLSEKLVTEWFSQAADSNTEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLIPPASQPVPTPPPVASNSGNSNTPSSTPATTTSNTMTVASSNAISSAAAPTSSTMTTTTTSSSSTNLSGGIPSKPPSFPPFGNITSNTAGSMSAQAPTVQNGQLGQQPPTLQTTGISGESSAVPAQPHSEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSNIWTLGLLRCFLEMVQTLPSNIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSSDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNTNNEDGADGMGIFDLLDTGEDLDPDIINILPASPTGSPVHSPGSHFPHGGDASKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQHQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2176
PositionMiddle
OrganismOrnithorhynchus anatinus (Duckbill platypus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Monotremata> Ornithorhynchidae> Ornithorhynchus.
Aromaticity0.07
Grand average of hydropathy-0.406
Instability index53.86
Isoelectric point5.53
Molecular weight239347.66
Publications
PubMed=18464734

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

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27267
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.17|      22|      30|    1539|    1568|       1
---------------------------------------------------------------------------
  491-  512 (38.27/ 9.32)	TDSSSQRLV..IPA.PDSQVRFSNI
 1543- 1567 (34.90/26.37)	TSSSSTNLSggIPSkPPSFPPFGNI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     136.38|      28|      29|    1017|    1044|       3
---------------------------------------------------------------------------
  980- 1004 (49.42/22.46)	P.QT.HT..PFGM.PPSSAPPS.NSGAGILP
 1017- 1044 (49.76/22.67)	P.RTPRT..PRGAGGPASAQGSVKYDNSDLY
 1046- 1074 (37.20/14.86)	PaSTPSTcrPLNSVEPATVP.SIPEAHS.LY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.95|      17|      18|     553|     569|       4
---------------------------------------------------------------------------
  553-  569 (35.34/21.19)	PSTPQSQHFYQMPTPDP
  572-  588 (31.61/17.93)	PSKPVEDRIDSLSQPFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.21|      19|      20|    1317|    1336|       5
---------------------------------------------------------------------------
 1317- 1330 (13.01/ 6.81)	.........FHKMAGRgSYGTDE
 1331- 1348 (25.39/11.08)	SPEPLPiptF..LLG...YDYDF
 1352- 1370 (25.81/11.39)	SPFALP..yWERLMLE.PYGSQ.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.93|      23|      34|    1108|    1141|       6
---------------------------------------------------------------------------
 1112- 1136 (39.34/40.31)	YIPDPTQEAQYRCTCGFSAvmNRKF
 1143- 1165 (37.58/11.40)	FLEDELDIVGRNTECGKEA..EKRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.76|      23|      34|     904|     926|       7
---------------------------------------------------------------------------
  904-  926 (43.41/28.40)	IYKL.ENC...QA.LVG.CSMFAPLKTLP
  932-  960 (25.35/12.73)	PIKLpEECiyrQSwTVGkLELLPPGPAMP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.86|      29|     258|     181|     212|       8
---------------------------------------------------------------------------
  181-  212 (48.07/34.92)	INQHQPVyllSEEHITLAQQ..SNSPFQVILSPF
  447-  477 (48.80/27.47)	VGQQQPV...AAKHKTNEKQekGDKPQKRPLTPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.71|       9|      17|    1463|    1472|       9
---------------------------------------------------------------------------
 1463- 1472 (14.80/11.80)	DLGPYlASQP
 1482- 1490 (18.91/ 9.95)	NLIPP.ASQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     389.59|     113|     415|     246|     359|      10
---------------------------------------------------------------------------
    6-   55 (41.66/18.53)	.....................................................IP...NGASLEDCHCNLFCLadltGIKWKRY.VWQGPT.SAPILFPVTEEDPILS......................
  246-  359 (195.14/125.98)	CLK..EVSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFV......LVPQSDIP...TPSSVGAPHCSTTCL....GVHQVPA.SSRDPAMSSVTLTPPTSPEEVQSvDAQSAQKWAKFSSASDAFSSD
  662-  777 (152.79/93.53)	CKKplKVSDELVQQYQSKNQYLSAVVSDAEQEPEIDPYAFVdgdvefLFPDNKKErqnTEREVGKKHKAED......GSSSVTVlSHEEDAMS...LFSPSIKQ.....DAQRPSGHARPPSTSLIYDSD
---------------------------------------------------------------------------




































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 MDP27267 with Med13 domain of Kingdom Metazoa
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