<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 MDP29027

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMNRGFVRIGKWFVKPYQKEEKSINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLSEEHLSLAQQSSSPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPNPKEVPEDKMEDSDWEDDSLAAVEVLVAGVRMVYPSCLVLLPLTDLPAVVPQGSANTSGSMCGAQQGQAAHRDPAISSVTLTPPTSPEEAQTDYQLAQRWPKLSSASDGYSSNNTLHGGKIPRRMAGQMVETVWQEYHLNRTGHKRKFPTLTNGTSEEEPDRTGIWDFVESNHGLHCNCLRHKNPKQRSNSTSGHPPSSGQLSQPIPKHKLGEKLEKSEKQLKRPQTPFHHRSSVSEEQALEPQTQRLCLRPQEEGSYPSLHHVDAVPSKAPTLHTHGPPADLGGSPPPPPLSPHLCDHADSDGTPGGMKNSSTPIHQSFYPPSVEPCILPQKGSSEEPQHENAPLPLPFPPSYSETLEPTMFVGSAVNPNEDTTHNPWKYFNLPRKKAFNFPTPQLPVDKTRDDTGGTESVSSITEVMSSSTHPLKVSQELIKTYTQRRNSHLVSTSGDAEQSDEPDPYAFVEGDDEFPFTEKKDKPGTEKDGVKKHKVGFRTSRLEPVAHLLISHLFAPVDGQGPAGNKPSASTSLIHVNDLAVSYSDLDKIFNSDEDELAVSVNSVAQPGVGSDDKFACKETKGATLDPHSCISSADLHQMFPTPPSLDQPGYSPMNSGTKDSLEAGAGLTLLDGSLLNNHFKMEVEEGFCSPKPSDIKDFSFVYKAETSQMFVGCSMYAPLKTLPSQCLLPIKLPEECVYTPSWSLGKMELIPPPFLYYSQTYTPQTHTPFMSSSAPPSNSGAGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGEAQYPCTCGFSAVANRRFGQSAGLFLEDELDVVGRGSDSSRDTERCFEELRASSVQKAGSLVEKPPDNLIMLLQDQCTNPFAPMAGVEHSKTNSPPTSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHRWPKSADMSKLFSQDVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFVLPYWEKLLLEPFGSQRDVGYVVICPENEALLSRAKTFFKDLSTTYEACQLGQHRPICKSHPEGILKFGATEGRSITEQPFSDWFLKMAARDRYNEAFNKLKLFAQVCCYDLAPYLSEQSLDSSLLSQRSPALASSSSPSQMSSSSSITSGTQSTTTSAQPAQISSTPPSSSSVSQTMAGMTPSKPSSYSPFGNTGLQSNSSQNGPQATSQGTAGPAENGPSTNQNQGSAEVPESFPSLNSTVERDKVGKPTDGESHAVSYPPAIMVYIVDPFSYEDADKEAHSSTYTLGLLCCYMEMLKLLPPRIRNAVSVQIVPCQYLLQPVHSGERHVYSQHLKSLAFSVYTQCRRPLPNSTNFKALTGFGPGLAIDTALKNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLETCIISIDVPSRARRKNGNIRRVGLQKLWDWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVVMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDINFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGSHYHHGGDGSKGQSADRMESHEEALNILQQPMALGYFVSTAKTGPLPDWFWSACPQAQNQCPVFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLTQMYNFIMNML
Length1989
PositionMiddle
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.07
Grand average of hydropathy-0.458
Instability index56.69
Isoelectric point5.83
Molecular weight218581.50
Publications
PubMed=21551351

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

>MDP29027
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     147.24|      28|      28|    1326|    1353|       1
---------------------------------------------------------------------------
  837-  877 (34.92/11.73)	PFMSSSAPP...S..NSGAGILPSPATprfsvptprtprtprTPRG
 1326- 1353 (45.46/17.58)	PALASSSSP...SQMSSSSSITSGTQS...............TTTS
 1356- 1375 (34.74/11.63)	PAQISSTPP...SSSSVSQ.......................TMAG
 1378- 1404 (32.13/10.19)	PSKPSSYSPfgnTGLQSNSS.QNGPQA...............T...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.27|      23|      28|     937|     964|       2
---------------------------------------------------------------------------
  937-  964 (33.49/42.24)	K.DCNFDSccvcVCNMNIrGADVGVYLKD
  971-  994 (37.78/25.40)	PcTCGFSA....VANRRF.GQSAGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.86|      28|      28|    1643|    1670|       3
---------------------------------------------------------------------------
 1643- 1670 (52.95/38.56)	DVPSRA.RRKNGNIRRVGLQKLWDWCLGL
 1672- 1700 (45.91/32.33)	QVTSLPwRVVIGRLGRMGHGELRDWSILL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     127.98|      28|      28|     428|     455|       4
---------------------------------------------------------------------------
  399-  423 (35.38/14.19)	....SPPPPP....LSPHLCDHADSDGTPgGMK
  428-  455 (52.33/25.12)	PIHQSFYPPS....VEPCILPQKGSSEEP.QHE
  458-  486 (40.27/17.34)	PLPLPF.PPSysetLEPTMFV..GSAVNP.NED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.75|      27|      29|    1029|    1057|       5
---------------------------------------------------------------------------
 1029- 1057 (40.99/28.47)	EKPPDNLIMLLQDQCTNPfAPMAgVEHSK
 1059- 1085 (51.76/26.77)	NSPPTSFLRVEERDCYND.CYMA.LEHGR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.17|      13|      24|     787|     809|       6
---------------------------------------------------------------------------
  788-  802 (21.55/ 9.30)	LKTL....PSQCLLPikLP
 1531- 1547 (19.62/ 8.92)	LKSLafsvYTQCRRP..LP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.49|      18|      24|     223|     240|       7
---------------------------------------------------------------------------
  223-  240 (33.92/19.52)	YSSNNTLHGGKIPRRMAG
  250-  267 (34.57/20.04)	YHLNRTGHKRKFPTLTNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.78|      17|      24|    1181|    1204|       8
---------------------------------------------------------------------------
 1184- 1204 (27.85/26.52)	GYEYD..FVVlspfVLPYWEKLL
 1209- 1227 (25.93/ 7.41)	GSQRDvgYVV....ICPENEALL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.01|      11|      24|     181|     191|       9
---------------------------------------------------------------------------
  181-  191 (20.48/12.71)	QAAHRDPAISS
  208-  218 (21.53/13.82)	QLAQRWPKLSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.93|      18|      24|     738|     758|      10
---------------------------------------------------------------------------
  738-  758 (26.73/23.61)	LLDGSLLnnhFKMEVEEGF..CS
  764-  783 (27.20/14.54)	IKDFSFV...YKAETSQMFvgCS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.22|      26|     201|    1234|    1261|      11
---------------------------------------------------------------------------
 1234- 1261 (44.72/28.61)	FKDLSTTYEACQLGqhRPI.CKSH....PEGIL
 1431- 1461 (38.49/18.32)	FPSLNSTVERDKVG..KPTdGESHavsyPPAIM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.41|      20|      24|     320|     339|      13
---------------------------------------------------------------------------
  320-  339 (35.82/20.74)	PKH...KLGEK..LEKSEKQL.KRPQ
  341-  366 (21.59/ 9.34)	PFHhrsSVSEEqaLEPQTQRLcLRPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.09|      19|      20|    1139|    1158|      14
---------------------------------------------------------------------------
 1132- 1150 (31.95/12.91)	PVLQDTIQKKRSVRSWGVQ
 1152- 1170 (36.14/20.42)	PLTWQQFHKMAGRGSYGTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.25|      24|      24|    1751|    1774|      15
---------------------------------------------------------------------------
 1751- 1774 (40.45/28.63)	STGSVFGRSTTLNMQ.TSQLSTPQD
 1776- 1800 (37.80/26.15)	SCTHILVFPTSAMVQvNTNTSEPID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.33|      11|      31|    1801|    1811|      17
---------------------------------------------------------------------------
 1801- 1811 (21.97/12.46)	INFNPINPDGS
 1830- 1840 (20.36/10.90)	INILPNSPTTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.26|      25|      29|     594|     622|      19
---------------------------------------------------------------------------
  594-  619 (37.58/35.33)	EKDGVKKHKVGFRTSrLEPVAHLLIS
  626-  650 (42.68/24.10)	DGQGPAGNKPSASTS.LIHVNDLAVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.26|      13|      24|     652|     666|      21
---------------------------------------------------------------------------
  652-  666 (14.74/18.95)	SDlDKiFNSDEDELA
  679-  691 (24.53/16.75)	SD.DK.FACKETKGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.30|      23|      37|    1576|    1599|      22
---------------------------------------------------------------------------
 1576- 1599 (38.23/24.65)	CLRlYTPPFILAPVKDKQTELGET
 1615- 1637 (44.06/24.59)	CLS.HDQRWLLASCTDQHGELLET
---------------------------------------------------------------------------




































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 MDP29027 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CNCLRHKNPKQRSNSTSGHPPSSGQLSQPIPKHKLGEKLEKSEKQLKRPQTPFHHRSSVSEEQALEPQTQRLCLRPQEEGSYPSLHHVDAVPSKAPTLHTHGPPADLGGSPPPPPLSPHLCDHADSDGTPGGMKNSSTPIHQSFYPPSVEPCILPQKGSSEEPQHENAPLPLPFPPSYSETLEPTMFVGSAVNPNEDTTHNPWK
2) GQMVETVWQEYHLNRTGHKRKFPTLTNGTSEEEPDRTGIWD
3) INILPNSPTTSPVHSPGSHYHHGGDGSKGQSADRMESHEEA
4) LPSPATPRFSVPTPRTPRTPRTPRGPSSVQGS
5) LSQRSPALASSSSPSQMSSSSSITSGTQSTTTSAQPAQISSTPPSSSSVSQTMAGMTPSKPSSYSPFGNTGLQSNSSQNGPQATSQGTAGPAENGPSTNQNQGSAEVPESFPSLNSTVERDKVGKPTDGES
6) NFPTPQLPVDKTRDDTGGTESVSSITEVMSSSTH
7) TQRRNSHLVSTSGDAEQSDEPDPYAFVEGDDEFPFTEKKDKPGTEKDGVKKHKVG
8) VPQGSANTSGSMCGAQQGQAAHRDPAISSVTLTPPTSPEEAQTDYQLAQRWPKLSSASDGYSSNNTLHGGKIPRRM
290
240
1830
853
1321
504
550
163
493
280
1870
884
1451
537
604
238










Molecular Recognition Features






MoRF SequenceStartStop




1) PWKYFNLPRKKAF
491
503