<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 MDP17390

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRQGRRELWLFWWGDDPNFSELIHHELTAEDDGLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFIKPYEKHEKPFNKSEHLSCAFNFFLHGESNVCTSVEINQHQPIYHLTEEHLALAQQASSPFQVILSPFGLNGMLTGQSFKVSDPPTQKLIEEWNQFYPISPRAKDAEEKAEDMDWEDDSLASVEVLVGGVRMIYPACLVLVPQTDIPVLAPVGSSHCTAVYSGGHQVPASQREPAMSLVTLTPPTSPEEAHTVDCHSAQKWVKMPSLSDAFSVDRTXHHGGKIPRRLATQVVERVWQECNINRAQNKRKFSTATNGICEEELTEKLGAWDFVVPSQTSYCSCSRHKSVKQRIGSTPGQTQSAGQPSQPPTKHKTGGEKPEKGEKQQKRPQTPFHHRSLTSDETSIETEAAVGQRLAIRGQDGGRFRSTDVAAISKAHLLHSGAISTGPSEQPNSPQPPPLSPHPCERPEESGEGIKNPSTPNGQHFYQLPPEHCLVGVKGGSEEPGGPDCLNQHFHPHSHSATSSYPEPPEPTVYVGAAVNQDDDSSHTPWRLFNLPRRKEAELPTPLLPGDKLRDEASIAQDLVSVTELMSSSKGPLKVSEERVQMYRARSNHYLSAAIIDGDHEPEVDPYDFEDGEVKFTFSSKKDKAGGEREPGKKHKGEDGGSGPSDESQHAAANNRMASTSLMHETDLVVSINDLEHLFNSDEDDLTIGPRRPVNGTDENSSYKEQKPSILDPVSCIGSDWPHMFPTPPSLEQHTMGYSPMNMCSKEYCSMEHNLGMTTLDGISTLGGDFKIEVEESFCSPKPSEIKDYSFVYKTELCQAFVGCSMFAPLKTLPSQSLPPVKVPEDCVYRPSWTMGREMPVMNFLNKDSNIPSEGSXMDQDYNQTYTPQTHTPFMSNSAPPSNSGIGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSDPVSEAQEACSCGFSAVVNRRYGNSSGLFLEDELDIIGRGSDVSREAEKRFEELRLSSLEKTGVGRGDIVPDELILLLQDQCMNPFSSFSIMENDTVTWGPSGAPETPCLRVEERDYCSDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHPWAKQNAVDVSSLCSQDVLRVLMSLQPVLQDAIQKKRTVRSWGFQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYLVVCPDNEALLSGSKSFFQDLSAVYESCRLGQHRPISRGYPDGIVIVGGSAAKTLADQPVSEWFLKGASGNSDAFTKLKLYAQVCRHDLAPYLASQTLDSSLLTQPSTPPSSNQTSSTQQSSSSSSTANQQSSSVSNNNNNNNSMSSGYGNGSASSNNHTASSGQPGSTIPSAKPNSFPPFVSTGSQNSQSGQLGQQAGSQNAGTSGENSNSQAQGPTEPPESTLEREKVGVPTDGESHAMXYPPAIVVYIVDPFSYEESDGGLGPVQTHSSVWTLGLLRCYLEMLQFLPPHMRNSVSVQIVPCQYLLQPVRGEDRQIYAQHLKSLAFSVFTQCRRPLPTSTNVKSLTGFGPGLAIDIALRRPERPDCLRLYTPPFILAPEKDRQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIINIDLPNRARRKKGSVRRLGLQKLWDWCLGLVQTTSIPWRVVIGRLGRMGHGELKDWSILLSRGNLQSLSRRLKEMCRMCGISASDTPSILSVCLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSASVQVASSNYTNIDTNIDILNATTDGSDAIGIFDLLDQNELVDPDIINISPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHEEVQNLLQQPLALGYFVSTAKVGPLPDWFWSACPQAQNQCPLFLKASLHLHASSLQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMNML
Length2150
PositionMiddle
OrganismAustrofundulus limnaeus
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Rivulidae> Austrofundulus.
Aromaticity0.07
Grand average of hydropathy-0.453
Instability index54.22
Isoelectric point5.47
Molecular weight236533.77
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

>MDP17390
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      95.10|      21|      22|    1403|    1423|       1
---------------------------------------------------------------------------
 1365- 1385 (23.28/11.87)	RDI..GYlvvcPDNEALLSGS..KS
 1403- 1423 (39.18/25.96)	RPISRGY....PDGIVIVGGSAAKT
 1427- 1445 (32.64/20.16)	QPVSEWF....LKG..ASGNSDAFT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.85|      29|      38|      21|      57|       2
---------------------------------------------------------------------------
   21-   52 (47.16/40.70)	CL.ADLTGIkWKRFVWQGPTSAPILFpvTEEDP
   60-   89 (54.69/24.93)	CLkADVLSV.WRRSQRQGRRELWLFW..WGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     159.89|      26|      26|     545|     570|       3
---------------------------------------------------------------------------
  545-  570 (52.50/24.80)	PHPCERPEESGEGIKNPSTPN..GQHFY
  574-  599 (35.27/13.95)	PEHCLVGVKGGS..EEPGGPDclNQHFH
 1008- 1031 (31.00/11.27)	..PTPRTPRTPRTPRGPSSVQ..GSLKY
 1043- 1067 (41.12/17.64)	PSTC.RPLNSVEPATVPSIPE..AHSLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.05|      18|      22|    1299|    1316|       4
---------------------------------------------------------------------------
 1299- 1316 (36.49/22.17)	SWGF..Q...GPLTWQQFHKMAG
 1319- 1337 (24.58/12.01)	SYGT..DespEPLPIPTF..LVG
 1339- 1356 (19.98/ 8.08)	EYDFvvL...SPFGLPYWEKL..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.36|      22|      25|     436|     460|       5
---------------------------------------------------------------------------
  439-  460 (39.74/17.27)	PGQTQSAGQPSQPPTKHK..TGGE
  462-  485 (31.62/ 8.84)	PEKGEKQQKRPQTPFHHRslTSDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.29|      25|      32|     934|     958|       7
---------------------------------------------------------------------------
  934-  958 (47.99/30.05)	DCVYRPSWTMGREMPVMNFLNKDSN
  967-  991 (45.30/27.87)	DQDYNQTYTPQTHTPFMSNSAPPSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     254.65|      65|     397|    1512|    1578|       8
---------------------------------------------------------------------------
  515-  544 (26.20/ 6.31)	.............AISKAHLLHSGAI.STGPSEQPNS.....pQPPPLS..........................
 1474- 1503 (32.59/ 9.88)	........................QP.STPPSSNQTS...........STQQSSSSSSTANQQSSS.........
 1512- 1578 (109.26/60.44)	NSMSSG..YGNgSASSNNHTASSGQPgSTIPSAKPNS......FPPFVSTGSQNSQSGQLGQQAGSQNAGTSGEN
 1909- 1975 (86.60/40.24)	DSVSTGsvFGR.STTLNMQTS...QL.STP...QDTScthilvFPTSASVQVASSNYTNIDTNIDILNATTDGSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.06|      13|     397|     236|     250|       9
---------------------------------------------------------------------------
  236-  250 (22.12/20.29)	WNQFYpiSPRAKDAE
  634-  646 (25.95/15.46)	WRLFN..LPRRKEAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.05|      12|     397|    1207|    1218|      11
---------------------------------------------------------------------------
 1207- 1218 (24.83/12.60)	GPSGAPETPCLR
 1585- 1596 (22.22/10.34)	GPTEPPESTLER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.11|      28|      32|     289|     320|      14
---------------------------------------------------------------------------
  286-  317 (44.18/33.46)	QTDIPVLAPVGS...SHCTAVYSGGHQVpasqREP
  318-  348 (45.93/25.16)	AMSLVTLTPPTSpeeAHTVDCHSAQKWV....KMP
---------------------------------------------------------------------------




































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 MDP17390 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FLNKDSNIPSEGSXMDQDYNQTYTPQTHTPFMSNSAPPSNSGIGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENS
2) FNSDEDDLTIGPRRPVNGTDENSSYKEQKPS
3) IINISPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHEEV
4) KFTFSSKKDKAGGEREPGKKHKGEDGGSGPSDESQHAAANNRMASTSLMHET
5) QTLDSSLLTQPSTPPSSNQTSSTQQSSSSSSTANQQSSSVSNNNNNNNSMSSGYGNGSASSNNHTASSGQPGSTIPSAKPNSFPPFVSTGSQNSQSGQLGQQAGSQNAGTSGENSNSQAQGPTEPPESTLEREKVGVPTDGES
6) RHKSVKQRIGSTPGQTQSAGQPSQPPTKHKTGGEKPEKGEKQQKRPQTPFHHRSLTSDETSIETEAAVGQRLAIRGQDGGRFRSTDVAAISKAHLLHSGAISTGPSEQPNSPQPPPLSPHPCERPEESGEGIKNPSTPNGQHFYQLPPEHCLVGVKGGSEEPGGPDCLNQHFHPHSHSATSSYPEPPEPTVYVGAAVNQDDDSSHTPWRLFNLPRRKEAELPTPLLPGDKLRDEASIAQDLVSVTELMSSSKGPLKVSEERVQM
952
787
1993
723
1465
427
1034
817
2031
774
1607
690










Molecular Recognition Features






MoRF SequenceStartStop




1) IKTNIKSASGSMHPYN
254
269