<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 MDP26478

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPETPLSPPSSPVACERPLLTQQELSAATELPERVWAECTLSSPVSASKTESSTEPETWTFVEPTQKSSCTCSCSKYTTPGGWKSLASSQIQRERVDKGGRRVVPFHRRSTTQWDTCPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTAPPLTPSQGPKSISSACNNQVHSPSVPGPILKRPVLASREYEGALLDDEQPLSWLYDYSLQEAWLNHPVKRFKATNTAGPPINRSNILYPPINSQTLQASQAPKLEIKQEPVSVAECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDADTSSDETNLNQLQIQTPPGSNKSGGLHEETRIDGTNKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLIDQTELLMPTRPLRHLPDIYPNMGSPQEEPIDDWSYVFKPAAICKMVGSSNPAPPYRSATLPGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLIVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWAGSALFQDDDPIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLATAACPGAKATPDGLDIISPNVLELLREQCLIVQSSASSLYRAARICATTKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGAHNERVVRVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVAGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAICFWEKLSLEPFAGPRDVAYVVVAPDSDCIINRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTAQKLAKQPMDEWFKFLGENHLGELLRLYAQVCNHRLAPYLTQVIQDRSLLDPADLQSSNKQQQQSTIPVPDTMPATPDVLTTTKPESVEGENPRSETPSSTSTATNQTATTTGNTTPTSQTTNSTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSSAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADLFLKSKDSFSNTLATIHQERNKAPYRLYAPAFVLAPLRAKSEAPESFGMARPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILSIMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPNGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIAIAEQTEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQSAPTAHPYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length1799
PositionMiddle
OrganismCamponotus floridanus (Florida carpenter ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Formicinae> Camponotus.
Aromaticity0.07
Grand average of hydropathy-0.408
Instability index59.87
Isoelectric point5.86
Molecular weight196575.50
Publications
PubMed=20798317

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
>MDP26478
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     175.03|      38|      39|     279|     316|       1
---------------------------------------------------------------------------
  211-  288 (30.77/ 7.19)	AECTlSSPVSASKT.ESSTEpetwtfveptqkssctcscSKYTTPGGWkslassqiqrervdkggrrvvP.FHRRSTTQW
  289-  327 (69.93/26.41)	DTCP.SVPANAPRSVLSRTE...................APSTPPGGP.....................PsYSRGPPTGG
  673-  704 (40.20/11.82)	..CK.MVGSSNPAPPYRSAT...................LPGRPP..P.....................PpYDQPSP...
 1628- 1652 (34.14/ 8.84)	...........PEPGAGGGQ...................SPNGSPHRP.....................E....GSPHGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.45|      33|      39|     835|     871|       2
---------------------------------------------------------------------------
  835-  871 (53.01/30.18)	EKKKGSLATAA..CPGAKATPDgldiISP..NVLEL..LREQC
  875-  913 (45.44/18.85)	QSSASSLYRAAriCATTKSYPT....LTPtvNTLEFndGNEVC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     337.19|     102|     170|     358|     467|       3
---------------------------------------------------------------------------
  364-  467 (176.52/88.91)	PTLSPQPPPSHTNTAPPLTPSQGPKSISSACNNQVHSPSVPGPILKRPVLASREYEGALLDDEQPLSWLYDYSLQEAW.....LNH.PVKrfKATNTAGPPINRSNILYP
  531-  638 (160.67/81.05)	LFTSEGLQPSYKDLDQIFDNSDADTSSDETNLNQLQIQTPPGSNKSGGLHEETRIDGTNKNNNRGVTVLRPEELSKMFptppsLEHnPVA..SPCQLSDPLIDQTELLMP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     234.00|      68|     391|     919|    1021|       4
---------------------------------------------------------------------------
   65-  136 (113.98/66.25)	FVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSqsgvKVILAPYGLAGTLT.GQVSRMDSQLLEEWKHFYPI
  941- 1009 (120.02/100.67)	FLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTT....RMWEAPYTVAGPLTwRQFHRLAGRGTDDRCEPQPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.41|      16|      21|    1191|    1206|       5
---------------------------------------------------------------------------
 1191- 1206 (28.60/14.23)	PRSETPSSTSTATNQT
 1215- 1230 (28.81/14.38)	PTSQTTNSTTPITTTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     284.86|      89|     585|    1078|    1178|       8
---------------------------------------------------------------------------
 1078- 1178 (134.35/117.53)	GRHTPISKQLRdgiLRVGKSTAQ..KLAKQPMDEWFkFLGENHLGELLRLYAQVCNH..RLAP.YLTQVIQdrsLLDPADLQSSNKQQQQSTIPVpdtmpATPDVL
 1666- 1759 (150.51/97.19)	GSPFPCSNTPR...IAIAEQTEEvgTLLQQPLALGY.LVSTAPTGRMPPWFWAACPHleNVCPvFLKNALH...LHSPAIQQNSDDLLQQQSAPT.....AHPYVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.62|      17|      37|     763|     781|       9
---------------------------------------------------------------------------
  763-  781 (27.45/23.58)	CnaGPKVVGNIKGAD.AGVY
  802-  819 (27.17/16.06)	C..GFSAVVNRRLAHrAGLF
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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 MDP26478 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APPYRSATLPGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPAR
2) KQEPVSVAECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDADTSSDETNLNQLQIQTPPGSNKSGGLHEETRIDGTNKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLIDQTELLMPTRPLRHLPDIYPNMGSPQEEPID
3) LDPADLQSSNKQQQQSTIPVPDTMPATPDVLTTTKPESVEGENPRSETPSSTSTATNQTATTTGNTTPTSQTTNSTTPITTTTGPDEEEIEPP
4) TTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPNGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIA
5) VKRFKATNTAGPPINRSNILYPPINSQTLQASQAPKLE
6) WKSLASSQIQRERVDKGGRRVVPFHRRSTTQWDTCPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTAPPLTPSQGPKSISSACNNQVHSPSVPGPILKRP
682
485
1148
1580
446
257
729
661
1240
1678
483
411










Molecular Recognition Features






MoRF SequenceStartStop




NANANA