<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 MDP32290

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPILFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWIFWWGDDPNFAELVHHDLSCNEDGSWESGLTYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFVHGDSNVCTSVEINQHQPVYLLSEEHLTLAQQSSSSVQVILSPYGLSGTLTGQSFKLSDPPTQKLIEEWKQFYPIGPNTKEVTDDKMDDLDWEDDSLAAVEVVVAGVRMVYPASLVLVAQSDIPLVATVSSSSSSGSYAGAPHNQLVHGDTGISSVTLTPPTSPEEAQAVSQPAQKWVKLSAMSGVFSVDSSSHHGGKIPRRLASQMVERVWQECNINRAQNKRKFSTMSNGVCEEETDKASVWDFVESSQRSQCSCSRLKNQKQRACSTPGHPPSAGQPPQPSTKHKMAEKLEKGDKQQKRPLTPFHHRSSLCEEQPSLEQGESVHRLCLQGHEDSRYPSLHHADVTSSKTPMLHSSADEMAGSPQPPPLSPHPCERMEEPADGMKSSSSPLHQHFYPPSSEPCLEPQKPPDESTLDPLPLPCPPPYPETLEATIYVGSAINPNEDTTHNPWKYFRVPGGRNSDFHTPHLPVVAHFEDGNRTGGQDGIVSITEMMSSSKRPLKVSEELVKMYEHKKNQYLSSAVCDEDPEQESDPYAFEEGDEEFNFSDKDKKSGSEREAGKKAKREDGSSSSDDAQGSGGSKPLPTTSLIHETDLVVSINDLDNLFNSDEDDLTQPGSRRAAGGAEEKFGGKEPKPAAPDPLPCCADLHQMFPTPPSLDQGYSPINMGNTESAAGLSLLDGAMSGNFKMEVEEGFCSPKPSEIKDFSYVFKPESCQVLIGCSLYAPLKTLPSQCLLPVKLPEECVYRPSWTVGKLEMLQPMAAMTFLNKDSNIPSVGSAVEQEQSCTPQTHNTFMSNSAPPSNSGAGILPSPATPRISAPTPRTPRTPRTPRGPASVQGSLKYENSDLNSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNITGADVGVYISDPNMDSQYSSMDPCSCGFSAVMNRRYGNGAGLFLEDELDIMGRGSDAAREIEKHFEAVRAASLKRGTVLKEQVPDDLMLLLQDLCTNPFSPIIRPDLLGTVIKSPIRLEERDYYSDCYMALEHGRQFMDNMSGGKVDETLVKSSSLHHWAKRNAFDMSMLFSQDVLRMLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTLLVGYEYDYVVLSPFALPYWEKLLLDPYSSQRDVGYMVVCPDNEALLNGAKTFFRDLTAVYESCRLGQHRPIAKSHADGIVTVSDAGSKALTDQTLIDWLPKTINSSSSSEALNKLKLYAHVCRHDLASCLASQSLDGSLLTQRNPASSSQTSSSSSPVTTAQNVTPTTNSNSNTNTNTTPTSTSTSSSSSSCPQGVGNMPSSKPNTIPPFGAQGLQSSQQSGGQSAGTLGDATSATSQPQVPSEPAESTMEREKVGVPTDGDSHAVTYPPAIVIYIVNPFSYEENCQGSSSSVWTIALLRCYLEMLQLLPPHIRNAVYVQIIPSQYLLQPVWSEERHIYAQHLKSLAFSVYTQCRRRLPTSTNVKTLTGFGPGLAIDTALQSKERPQCLHLYAPPFVLAPVKDKQTELGETFGEAAQKYNVLFVAYCLSHDQRWLLASCTDQYGELLETCVISIDVPNRARRKKGSARRQGLQKLWEWCLDLVQMTSLPWRIVIGRLGRIGHGELRDWSILLSRRNLQSLGRRLKEMCRMCGISAADSPSILSTCLVAMEPQASFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAGLQAFSDVTDGMGGMDGILDLFAENDLVDPDLINIIPNSPTTSPVHSPGSHYHHGGDGSKGQGTDRMESHDESPNILQQPMALGYFVSTAKAGPLPDWFWSSCPQAKNQCPLFLKASLHLNVSSVQSDELLHSKHSHPLDSSHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2103
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.417
Instability index59.87
Isoelectric point5.51
Molecular weight231167.79
Publications
PubMed=23594743

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

>MDP32290
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.08|      30|      32|    1453|    1483|       1
---------------------------------------------------------------------------
 1453- 1483 (48.32/24.77)	TQRNPASSSQTSSSSSPVTTAQNVtPTTNSN
 1488- 1517 (55.76/25.57)	TNTTPTSTSTSSSSSSCPQGVGNM.PSSKPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     140.42|      31|      32|     536|     567|       2
---------------------------------------------------------------------------
  523-  540 (27.12/ 7.93)	......LHSS.ADEMAGSPQP........PPLS
  541-  569 (62.11/27.63)	PHPCERMEEP.ADGMKSSSSPLHQHF.YPP..S
  570-  588 (26.63/ 7.65)	SEPCLEPQKP.PD..ESTLDPL...........
  811-  828 (24.55/ 6.48)	PLPC......cAD........LHQMFpTPPSL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.69|      24|      33|     429|     452|       3
---------------------------------------------------------------------------
  429-  452 (48.23/21.80)	KNQKQRACS.TPGHPPSAGQPPQPS
  463-  487 (42.46/18.31)	KGDKQQKRPlTPFHHRSSLCEEQPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.58|      31|      33|     943|     975|       4
---------------------------------------------------------------------------
  943-  975 (53.12/29.93)	I.PSvgSAVEQEQSCTPQTHNTFMSNSAPPSNSG
  978- 1009 (54.46/25.53)	IlPS..PATPRISAPTPRTPRTPRTPRGPASVQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.28|      38|     208|    1670|    1707|       5
---------------------------------------------------------------------------
 1670- 1707 (66.71/34.60)	LPTSTNVKTLTGFGPGLAIDTA.LQSKERPQCLHLYAPP
 1870- 1908 (62.56/32.01)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.72|      58|     645|     703|     770|      14
---------------------------------------------------------------------------
  703-  770 (81.18/71.77)	DPYAFEEGDEEFnFSD.....KDKKSGSEREAGKkaKREDGSSSSDDAqgsgGSKPLPTTSLIhetD.LVVSIN
 1353- 1416 (87.54/50.39)	DNEALLNGAKTF.FRDltavyESCRLGQHRPIAK..SHADGIVTVSDA....GSKALTDQTLI...DwLPKTIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.93|      26|     555|     672|     697|      15
---------------------------------------------------------------------------
  672-  697 (46.18/26.25)	KVSEELVK..MYEH..KKNQYLSSAVCDED
 1224- 1253 (36.75/19.56)	KVDETLVKssSLHHwaKRNAFDMSMLFSQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.97|      31|      32|    1063|    1094|      16
---------------------------------------------------------------------------
 1063- 1094 (56.06/35.58)	KDCNFDSC.CICVCNMNIT.GADVGVYISDpNMD
 1096- 1128 (46.91/24.78)	QYSSMDPCsCGFSAVMNRRyGNGAGLFLED.ELD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.15|      27|      31|    1524|    1553|      17
---------------------------------------------------------------------------
 1524- 1553 (39.30/30.40)	AQGLQSSQQSGgqsAGTLGDATSATSQPQV
 1558- 1584 (46.85/27.82)	AESTMEREKVG...VPTDGDSHAVTYPPAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.44|      18|     828|    1016|    1036|      22
---------------------------------------------------------------------------
 1016- 1036 (25.68/19.14)	SDLNSPaSTPSTCrpLSSVEP
 1846- 1863 (33.76/14.55)	SAADSP.SILSTC..LVAMEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.54|      33|    1170|     771|     803|      23
---------------------------------------------------------------------------
  771-  803 (58.84/35.99)	DLDNLF.NS.DEDDLTQPGSRRAAGGAEEKFGGKE
 1942- 1976 (51.70/30.56)	DLINIIpNSpTTSPVHSPGSHYHHGGDGSKGQGTD
---------------------------------------------------------------------------




































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 MDP32290 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSAVEQEQSCTPQTHNTFMSNSAPPSNSGAGILPSPATPRISAPTPRTPRTPRTPRGPASVQGSLKYENS
2) INIIPNSPTTSPVHSPGSHYHHGGDGSKGQGTDRMESHDESP
3) LKNQKQRACSTPGHPPSAGQPPQPSTKHKMAEKLEKGDKQQKRPLTPFHHRSSLCEEQPSLEQGESVHRLCLQGHEDSRYPSLHHADVTSSKTPMLHSSADEMAGSPQPPPLSPHPCERMEEPADGMKSSSSPLHQHFYPPSSEPCLEPQKPPDESTLDPLPLPCPP
4) NDLDNLFNSDEDDLTQPGSRRAAGGAEEKFGGKEPKPAAPDPLPCCA
5) SDFHTPHLPVVAHFEDGNRTGGQDGIVSITEMMSSSKRPLKVSEEL
6) SLLTQRNPASSSQTSSSSSPVTTAQNVTPTTNSNSNTNTNTTPTSTSTSSSSSSCPQGVGNMPSSKPNTIPPFGAQGLQSSQQSGGQSAGTLGDATSATSQPQVPSEPAESTMEREKVGVPTDGD
7) YLSSAVCDEDPEQESDPYAFEEGDEEFNFSDKDKKSGSEREAGKKAKREDGSSSSDDAQGSGGSKPLPTTSLIHETD
947
1944
428
770
632
1450
688
1016
1985
594
816
677
1574
764










Molecular Recognition Features






MoRF SequenceStartStop




1) KKAKRE
2) PWKYFRV
3) TKHKMAEKLEK
731
620
453
736
626
463