<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 MDP01467

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTATANWVANGASLEDCHSNIFSLAELTGIKWRRYSFCSGGEYGPVISAPAQDDPVLRSFMHCVQANLLCVWRRKIKPDARELWIFWWGEEPNFSDVIHHELKVADEGLWECGLSYECRTLLFKAIHNLLERCLNDKGFVRIGKWFFKPHELEEKSLGSSEHLSCSFSFFLHGESNVCTSVEIVQHQPAYHITERHIRLAQTSSNPVQVILSPYGLSGTLTGQAFKMSDPAARKLIEEWSYFYPMVLPQKEGSGEKEQKEAGQAYDRSSHVAVDVIVGGVRMTYPAAFVLIAQGDLPVEQSPPVPAALGLNKELNNCSVPLTPPTSPEQPCSADSGFVTSASNVPTPDSGMGITTFSPKHSRKKLTCQVVHQAWRECYLNQSQHVPNQLIDASQRKEVPNTVATWNFNDLGARTPCSCSRLKQQKLNTSTTTAANIQPCSSSSLSSGPSLYPTSVSKHKTSERPEKPDKQSKRPAVIPFHHRLSVTEESPLEQDSPGGPQLGALVALESPLEPLSSLPSCKCSKSLANERKAPESLLHSSMSPLPPTLSPHPRMQDPEVLDASVDMLACPDGASGLGVITSETAVYTAQLRQRESGSGWWRGFRTPSTDKSEFRPPELPSEKLEQVETETSTVNNAFKRLYSRSHKRFKISEEKVAEHIHALGLFVQPGVEALRETGTGDDPYDFKEGDIEYPFPSSKRLKGSGRETKQKAKGEEITSNGSLPDGKDAMSIFNSAPKSDDLGQDDAPTKTNPSLTEEKDLAVNISDLENILDEEDVGPVYPNQHSTKLLVSTEDRLSGKEGRVNVSYPPTVADLQRMFPTPPSLEQHPAFSPITPYRDTPSQEPPAASGVTDHLPSLAPTQLTEYMMEMEDGATSPRLDDIKPQIGSSMFAPLSCLPSQTLPPLKIPEQCYYRPSWALLPKMEHFTPIMHLQNAAFTKDGYTNTPSVNTLTDQDYVQMSVNTASVSTTTGILPSPATPRFSVPTPRTPRTPRGINTASSGQGSVKQDGTELSSPASTPSTSLPLSSVEHLARPGPPIPEAHSLYVVLLLSDSVLSVFKDRNFDSCCICACNMNVKGADVGVYIPDSTCEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRTSEGGRAAERRLALCRRDPTMGDSRAKQSQDAGPGSPSVMVVIQEQCSQPISCLTSLHLPINSSCHGRKGALLQSWMSEKQWADASDACVDCFNAFEQGLQYVDNPTGGKVDLTVVRSTAIHSWPHTNVVDMSRLSSQDMVRMLLSMQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTVLLGYDRERDFLALSPLALPFWEKLLLEPYGGQRDVAYVVVCPNSTSLLAASQAFFQELSAVYETCRLGKHRPLSKVSKDGLVQVGQEVEPEKLEELNVDQWLSGQWAGQQHSDNISKLKLYAYALKQQLGPQLAALTLDSSLLLPPKPQPPVNNTSSSGQPQTWSADGEQASGAVSASNASTPGGALSSQPGEIAQGGSSDPKGQPSSTPAANTPADTPELSSEQTRIGIPTEADSADSIANPPAVVVYVVDAFLSSSGMRHEGGEEDEEEGEEVESGSIWLLGLLRCYTEMLQNLPETMRPALVLQVVPCQYLLQPASGESRLYLQHLRSMAFSCYSQCRRLLPQQTYIKSLTGFGPVSTVSSVLKSPEYPRPLQLYSPPFILGPSRPKHPEPGEIWAEVPPKFNVLFVGYCLSHDQRWILVSCTDQQGELLETCVINVDVPNRTRRPKVSARKMGLQKVWEWCIGIIQMTSLPWRIVIGRLGRLGHGELKDWSSLLGEHSLQSIGRQLREACRVCGISAADSPSILSACLVAMEPQGSFVIMPDAVTMGSVFGRSNALNLQTSQLNTPQDASCTHILVFPTSATTQLAPSSYPTEDNNDDMFPDLPFPDELENDIGHDMMLITSLHSPPNTSPVPSPGSPSGHHFHHTRSQGERLLSRDNPPEELKQQPLALGYYVSTAQANGLPHWFWASCPQAESQCPLFLKASLHHHISIAQSDEIPSDKTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCTPATQDRQSCLPVHLAVLVQMYNAILNIL
Length2111
PositionMiddle
OrganismPoecilia formosa (Amazon molly) (Limia formosa)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Poecilia.
Aromaticity0.07
Grand average of hydropathy-0.395
Instability index58.72
Isoelectric point5.61
Molecular weight231478.57
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: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

>MDP01467
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     346.67|      88|     257|     812|     936|       1
---------------------------------------------------------------------------
  443-  537 (115.64/39.96)	SLSSGPSLYPTSVSKHK............................TSERPEKPDKQSKR.PAVIP.....FHHRLSVTEESPLEQDSP.ggPQLGAlvaleSPLEPLSSLPS...CKCskslanerKAPES........LL
  823-  919 (145.16/109.58)	SLEQHPAFSPITPYRDT............................PSQEPPAASGVTDHLPSLAPTQLTeYMMEMEDGATSPRLDDIK...PQIGS.....SMFAPLSCLPSQTLPPL........KIPEQcyyrpswaLL
  938- 1039 (85.87/27.45)	.........K.DGYTNTpsvntltdqdyvqmsvntasvstttgilPSPATPRFSVPTPRTPR.TPRGIN....TASSGQGSVKQDGTElssPASTP.....STSLPLSSVEHLARPGP........PIPE...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.14|      32|      39|     676|     714|       2
---------------------------------------------------------------------------
  676-  708 (54.10/46.26)	TGTGDDPyDFKEG.DIEYPFPSSKRLKGSGRETK
  717-  749 (52.05/26.49)	TSNGSLP.DGKDAmSIFNSAPKSDDLGQDDAPTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.99|      24|      39|    1485|    1508|       3
---------------------------------------------------------------------------
  329-  347 (30.83/13.33)	QPC..SAD....SGFVtSASNVPTP
 1485- 1508 (44.64/23.11)	QPQTWSADGEQASGAV.SASNASTP
 1521- 1544 (41.53/20.90)	QGGSSDPKGQPSSTPA.ANTPADTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.98|      31|      39|     750|     781|       4
---------------------------------------------------------------------------
  750-  781 (48.03/34.01)	TNPSLTeEKDLAVNISDLENILDEEDVGPVYP
  792-  822 (55.95/35.49)	TEDRLS.GKEGRVNVSYPPTVADLQRMFPTPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     231.98|      74|     265|    1084|    1177|       6
---------------------------------------------------------------------------
 1092- 1177 (113.65/108.10)	YRCMCGFSAIVnrrLAHGTGLFleDELDIFGRTSEGGRaaERRLALCRRDPTMgdsraKQSQDAGPGSPSVMVVIQ........EQCSQPISCL
 1362- 1443 (118.32/66.86)	YVVVCPNSTSL...LAASQAFF..QELSAVYETCRLGK..HRPLSKVSKDGLV.....QVGQEVEPEKLEELNVDQwlsgqwagQQHSDNISKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.69|      15|      39|     222|     236|       7
---------------------------------------------------------------------------
  222-  236 (26.49/18.57)	GQAFKMSDPAARKLI
  262-  276 (26.20/18.28)	GQAYDRSSHVAVDVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.10|      24|     265|     281|     309|       8
---------------------------------------------------------------------------
  281-  304 (44.04/17.59)	RMTYPAAFVLIAQGDLPVEQSPPV
  553-  572 (34.87/11.30)	RMQDPE..VLDASVDM..LACPDG
 1459- 1477 (27.18/ 8.78)	.....AALTLDSSLLLPPKPQPPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.19|      20|     470|    1320|    1359|       9
---------------------------------------------------------------------------
 1296- 1316 (33.13/37.25)	PLTWQQFHKMAgRGSYGSEES
 1340- 1359 (37.06/ 9.51)	PLALPFWEKLL.LEPYGGQRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.56|      20|    1414|     355|     377|      12
---------------------------------------------------------------------------
  355-  377 (34.79/30.77)	TFSPKHSRKKLTCQvvhQAWREC
 1771- 1790 (39.77/25.87)	TRRPKVSARKMGLQ...KVWEWC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.52|      10|    1412|     538|     552|      20
---------------------------------------------------------------------------
  538-  552 (17.17/14.04)	HSsmsplPPTLSPHP
 1953- 1962 (23.35/ 7.43)	HS.....PPNTSPVP
---------------------------------------------------------------------------




































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 MDP01467 with Med13 domain of Kingdom Metazoa
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