<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 MDP08774

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHPSHQTNGASLEDCHTNFFALTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILCVWRRVAATPATSGPAAAATTASAPGAGIFDLGIAPSPAPPPLSLTAAKELWIFWYGEEPDLSGLVSPELIACESEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPETPLSPPSSPVTCERPLLTQQELSAATELPERVWAECTLSSPVSASKTESSTEPGTWTFVEPTQKSSCTCSCSNSKAILNDKLVNVFIKLYFKQVKLYLHIYNFFQKHINCAFARKRDVKCIGCRYTTPGGWKSLASSQVQRERVDKGGRRVVPFHRRCTTQWDACPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILISREYEGALLEDEQPLSWLYDYSLQEAWLNHPVKRFKSMNISAPPINRSNVLYPPMNSQTLQSQAPKLEIKQEPIAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPTKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWVGSALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTAVACPGVKTTPEGLDTIPPNVLELLREQCLIVQSSASSLYRAARICATVKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGAHNERATRVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGPRDVAYVVVAPDSDCIVSRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTMQKLAKQPMDDWFKFLGENHIGELLRLYAQVCNHRLAPYLTQIIQDRSLLDPGDSQSANKQQQQQSTTIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNTTGNTTPTTQPTSNTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSSAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADIFLKSKDERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILGVMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length1963
PositionMiddle
OrganismCyphomyrmex costatus
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Cyphomyrmex.
Aromaticity0.07
Grand average of hydropathy-0.366
Instability index58.13
Isoelectric point5.88
Molecular weight214787.41
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. 


ECO:0000256	RuleBase:RU364134

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

>MDP08774
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     212.86|      33|      40|     790|     822|       1
---------------------------------------------------------------------------
  310-  336 (41.36/10.08)	.......DMDDTPPETP.LSP.PSSPVTC.ERPLLTQ
  515-  540 (36.34/ 8.08)	......PTGGDCLPVPS.VGS.PGSPA...PSPLLTP
  573-  604 (31.39/ 6.11)	TP.SQGPKSISSACNNQvHSPsVPGPV.L.KRPIL..
  790-  822 (55.86/15.85)	RP.EELSKMFPTPPSLE.HNP.VASPCQL.SDPLMDQ
  830-  864 (47.92/12.69)	RPlRHLPDIYPNMGSPQ.EEP.IDDWSYVpPPPPYDQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     262.04|      81|     575|     371|     490|       2
---------------------------------------------------------------------------
  371-  460 (129.71/69.10)	GTWTFVEPTQkssCTCSCSNSkAILNDKLVNVFIKLYFKQVKLYLHIYNFFQKHINCAFArkrdVKCIGCRyTTPGGWKSLASS..QVQRER
  951- 1033 (132.33/52.68)	GSALFQDDDQ...IRCSCGFS.AVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTA....VACPGVK.TTPEGLDTIPPNvlELLREQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     219.08|      67|     575|    1240|    1357|       3
---------------------------------------------------------------------------
 1270- 1357 (101.27/136.48)	MDDWFkflgenhigellrlyAQVCNH..RLAP.YLTQIIQdrsLLDPGDSQSANKQQQQQSTTIPVPDTMPATPDVLStkpESVEGENPRS
 1861- 1930 (117.81/59.35)	MPPWF...............WAACPHleNVCPvFLKNALH...LHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLR...YVLEGYNALS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.25|      31|     575|     889|     923|       4
---------------------------------------------------------------------------
  889-  923 (50.48/46.42)	GPAR.....APESNSLVVNILL.GDTALNifrdHNFDSCSL
 1465- 1501 (43.76/29.18)	GRARerrkiQDEMRALALNVFLqGRRLLN....HNSTVKSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.53|      30|     574|    1118|    1204|       5
---------------------------------------------------------------------------
  247-  276 (55.77/12.73)	APYGLAGTLT.GQVSRMDSQLLEEWKHFYPI
 1142- 1172 (52.76/74.56)	APYTVTGPLTwRQFHRLAGRGTDDRCEPQPI
---------------------------------------------------------------------------




































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 MDP08774 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IGRRTDPYEFDATGEENGTNVDGLRRQRDDPTKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPAR
2) IIQDRSLLDPGDSQSANKQQQQQSTTIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNTTGNTTPTTQPTSNTTPITTTTGPDEEEIEPPAI
3) PRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPS
4) TTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEV
685
1304
490
1733
892
1406
593
1839










Molecular Recognition Features






MoRF SequenceStartStop




NANANA