<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 MDP13658

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDNKANIGLAGCLSNVFKLAEVEGLKWVRYVGPNSSSLETPKVDPVLTSYAKLLSEGYACSWSRLSPSTDGVSGEGKDLWVFYFTTLPDLSQELAPDLREESRGSWENGTGMSTESSAMLFRALNGLIERSLLTENFLPLGKWFARPDPSMGSDGRGCFLCNFSFFIYAHLYICASVDVRAGPALQPLLQSHLHQALASSSGMQVILSPSGLNAIMTGHSYQITDPGIEELLDEWKLFYPLRFTAESLSQLPAAVEVVLGGVRLRYPSQFVFVYHSEGSFPTPPPSPIDEGMTERVIQGGWEETTCVDPLVVQKDCESCSCTYHAYHRESHSNVSKPSRPHRLMSNSGDSIKNERSSKPHRYRPYSGPHPTDNATPMREQPVPSSLNLSTSVLSTTTKRPGPPRYATPLPSPAVTLPHSPALKAPMFPNPHFPVSSAHVQSTPPPPAPCPASTGPPSSLPSNAYNISQVADLIMASSNEKEQISSSYNLRDTGWWQCLYLPDSLSSMQRLVSPTSPWATGFTLLPNAPHGIPGSPNVVGGDPTRSTKRVKSSESQFPDMHSPSKRKPGNQIKVNSQIEASLLDPHHPFQDETIDKNIDAYNSTTGTTGKDPFMMVQQQLEADDGLSSSTIHKPGGGNFDLTSESAVKISGDLGELFDDSEEEDEIPKMTSTGEMNLFSYPPIDNNRNSKMNKMNHGECHPLPDLSHIYPTPPSVESTDDKFDEGKCFDERNEIVEANLMIKLCPFDDVVMDIIPDDFKPLTGVCNTTVNQQMKNCVYIKAPSSPINNAQQEKSVSSSNRANSEPQKFIFPPPSSLIRNTCTLSLPLSSRDQTMSPLLSTPFTALPSASPSLNQQDKQRSKQTCRLYHTHSVSSAIVCGKHLVNRSLSKLPSTNVGGIKQLPSQPSLDKEDNSAAWILDLLALPTNFVTKKLRELKTVFQNSFHHAPCIKVSTKGPLTLKDLQTLTPSQSLAGDDCLPLPMHPLVVGYDHEWMSVSPLSVPTWDKLLFEPYSTPKHVMYLVVCPGGETTLDTIVNFFRNLSITYKTSRLGCHVPFDKGEWDEGIVTGSTSKRNTDEKDEKTITIKSESKKEVPSSLPSSNLQKMCKEVITPFLLNLPSDKDKLLENTSHDVHMNRQLARPVPVFIVLYIVMKESENRVTKASGKKDEVIKVMKAMSSLLSNEQLPDSIKSRIVIQPLDESELIGHQANSTHNLRTLAFSVFSRNIQLFPSNDINSSVSHVLVLPPRPNSLPAMTPAAEEGGMDFASMINDFVDTTDVTLPGNMQEDLFEGLNEMDIDFPSTTYKEDVRAPLATGYLISTTPPGNLPTEFWGHDKPQSMCHMFKTLLHSHLSVHAYPGSPPDVLCSVLLAFDALSWLSINHVTQQRNSSLPIHLFLLSKLYNFFTVMSR
Length1407
PositionMiddle
OrganismAmphimedon queenslandica (Sponge)
KingdomMetazoa
LineageEukaryota> Metazoa> Porifera> Demospongiae> Heteroscleromorpha> Haplosclerida> Niphatidae> Amphimedon.
Aromaticity0.07
Grand average of hydropathy-0.377
Instability index53.08
Isoelectric point5.84
Molecular weight155041.82
Publications
PubMed=20686567

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

>MDP13658
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     631.72|     144|     611|     618|     778|       1
---------------------------------------------------------------------------
  197-  314 (159.66/73.79)	.LASSSGM..QVILSPSGLNAIMTGHS.YQIT.DPGieELLD..EWKLFYP.LRFT.....AE.SLSQLPAavevvLGGVRlryPSQFVFVY.HSEGS........FPTP.PP.....SPIDEG..MTER......viqGGWEETTCVDPL.....V.......................VQK
  315-  384 (87.94/33.69)	DCES....CSCTYH.....AYHRESHSNVSKPSRPH..RLMSNSGD........................S.....IKNER...SSKPHRYRpYSGPHPTDNATPMREQPvPS......................................................................
  503-  617 (150.14/72.74)	SLSSMQRLVSPT..SPWATGFTLLPNAPHGIPGSPN..VV...GGD....P.TRSTkrvksSE...SQFP.......DMHS...PSK...........................................rkpgnqikvNSQIEASLLDPHHPFQDETIDKNIDAYNSTTGTTGkdpfMMVQQ
  618-  770 (233.98/137.55)	QLEADDGLSSSTIHKPGGGNFDLTSESAVKISGDLG..ELFDDSEEEDEIPkMTST.....GEmNLFSYPP.....IDNNR...NSKMNKMN.HGECHPLPDLSHIYPTP.PSvestdDKFDEGkcFDER.........NEIVEANLMIKLCPFDDVVMDIIPDDFKPLTGVCN....TTVNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.72|      54|     324|     982|    1040|       2
---------------------------------------------------------------------------
  982- 1040 (93.92/57.28)	PLVVGYdheWMS.vsPLSVPT..W..DK..LLFEPYSTPKHVMYLV.VCPGG.ETTLDTIVNFFRNLS
 1309- 1373 (72.80/34.68)	PLATGY...LISttpPGNLPTefWghDKpqSMCHMFKTLLHSHLSVhAYPGSpPDVLCSVLLAFDALS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.51|      22|      77|     812|     845|       3
---------------------------------------------------------------------------
  823-  845 (37.45/41.37)	SLPlSSRDQTMSPLLSTPF.TALP
 1094- 1116 (38.06/14.43)	SLP.SSNLQKMCKEVITPFlLNLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     191.28|      37|     355|     422|     462|       5
---------------------------------------------------------------------------
  389-  412 (34.47/12.03)	.............STSVLSTTTKRPGP.PRYATP...LPSP
  426-  462 (74.61/32.45)	MFP....NPHFPVSSAHVQSTPPPPAPCPASTGPPSSLPSN
  782-  815 (38.89/13.58)	SSPinnaQQEKSVSSSNRANSEPQKFIFP....PPSSL...
 1226- 1254 (43.31/16.21)	LFP....SNDINSSVSHVLVLPPRPNSLPAMT..P......
---------------------------------------------------------------------------




































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 MDP13658 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PHGIPGSPNVVGGDPTRSTKRVKSSESQFPDMHSPSKRKPGNQIKVNSQIEASLLDPHHPFQDETIDKNIDAYNSTTGTTGKDPFMMVQQQLEADDGLSSSTIHKPGGGNFDLTSES
2) SGDLGELFDDSEEEDEIPKMTSTGEMNLFSYPPIDNNRNSKMNKMNHGECHPLPDLSHIYPTPPSVESTDDKFD
3) SHSNVSKPSRPHRLMSNSGDSIKNERSSKPHRYRPYSGPHPTDNATPMREQPVPSSLNLSTSVLSTTTKRPGPPRYATPLPSPAVTLPHSPALKAPMFPNPHFPVSSAHVQSTPPPPAPCPASTGPPSSLPSNAYN
528
649
330
644
722
465










Molecular Recognition Features






MoRF SequenceStartStop




NANANA