<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 MDP16226

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMGFLCYLFFDNSAKVSSQQSQPFYSEASKTPSGSGPVRDSTEDMASSKEGEKDASRKVKVPKRPEVNNGGSLEDCISNVFSLLELPGIKWKCFRPKLNAPRGVVPLTSDLVLKAYSRCLTDGILCTWRRKPSPPTGNNELLPPTHYFSNDSPKELWVFWYDAEPTALAKYCEGLDSDEELSSANQMNIVSYEVRTILFKALHVVLERDLTKDGFVRFGRWFTMPLVARDHYLHCMYPSHSPAIRFNFFVHGTSTICASIQAQRQPTLIKLARRHFECKTPKRFPVVVGPWSMRGYLIADQMTLLADPKIQEAAEKEWNQWKEYLQLEEKEPENVAEERQKTPEAEPSAPPQTTRVLLASSSDEDQEKSGGEEKNEEVSQKIRWMFEPDLRQDKPKEETAAEKEKRMAAREVRRLRRQRREERRREQEKQRRADDNQEDYDSDVVTDQEEDEAGKEEIVNNDVPKMILIEIDNVRLLYPSKFVCITVEEDRQMLESMGFKCHPMPQELQVPGRRPRNKNVVNMSNPLLSTMAVYQYVQNEKRAEREHFYPRNKPVEIEPLSNFEFLSNPEAARRVKPPKSPTFLSWKSQRANHFDTTDIFVNRLFENADTFDETPRPIKFACLSYQFIRRKWKWIRKKEIKFGGKAKKRFGIGSPQNFALNMMKFREKRKEYQPYHRKRPVKSVKEKKKKAKRKVKKFVKYANPNQFLASISRTKRKFNAWKQKMNGPPPKKGPAKKEAAADKDKDKDKEKDKEKDKEKDKEKDKEKDKEKEKDKEKDKENEDDPFVMDKVSQLDWANFSEDETNGNSFADPTEDLYNPAGGELEEGDEISNESPDEKTPEGSPNGSPRPKEDIEPFVPITHPAAKPSNIEWDLGREVDDMTEELEYVPKEDHITQDPKKVKNGHIPISEFAKDNQFYHGEICRLGLRGYKKICAERDREEAARRMKWLQLYREKAEKRNIKTARQCHRDYLRQIAKRCLRKALRRLRITAKKDALAPPPPKPKPVDPVLKKKEDAKKFEMSMKMMERDLGNLDMSAFCQIREKAGPHGVQSTAGYMKPNYTNSPHGSFDHDSESEIDEQRTGLGEGTSDQYQDGESVDMIDIERELANDPSSYLFNAGHIRTLGEHIGPDGMLSPPASNEMPKGGPLSVGPASIESQGLNQIYPTPPSVQMLQADASQAHSPSIGGKFRSTANDDIERAVAPGKTIVDVEIEDIETRNMQRWSKIANQSKLSKFLVASRDNPILKGRKKKYDTPATNKFDIQCQVERVTVPMAYKSMVTRNFECAPPHTFAELIRQSRTGIKKYTRPLQIQSTLARPPPGATSPVPPPTPMFNPHTLPLHHTSPFSAGPMSHHSMGPPAYPPTPGPYPPTTPTYPGMTPRPGSSYGPGYPNHHQMMPPGYPNQMGQMGGMNGMGGMPGMPGMGPMGMQRQFSNPQMYQHHQMMRMQQMRQMQAGQSGYGAPGVPQYPQQSPGGPGGFGVPSGPSSVQRLNNFVNQSQFGPSSGPQNPYGAQMIPQSPSFNQPYPGMGNQMMSPMQQHQFQQQQMMQQQQQQQQHQQQQQHQLQLQRSQAHQIQHQPNQQTIQQTPEQLQIQQSQQVQAVFQQLPDREKRKYQRRQIQLMNGLMPTSLQPASIKALKNPPDANIPYKRQDIIYNPPNPAHPRGDSLTIAIVLSDTLLDLHFDSVFDACPICSCSVSIRSRDLGMYITPHAVLSSREIGETNKREYTTGTWSGFHVNSATSCTCGFSAIRHRYLSCCAGLFDEDADEATASEHANASVIPPLFSRNTIKTRDMMWFDPQSVHDLALTYQIRQMAFSNSLGKAVSQMATEKEHRRNITNAVDIGTDITVPTEYVLSHVDTLELMMLGMSALGPMQTPETTGSQLPPQSKYLSYFHPWGFQTANEIAELESSEWVDLLDIVTPTLESSMKQARRPPAEIPFVIEGPMTWKQVVTKAIRGKPPTDEDEDFSLAEPVPAVMRALEQEAVRAAPNIEQYYDQAELGPVDQPKDVMYITIIPDNDDIYERTVKFMDTMTETYERMRLGRHIPFPVSTGTASRYREVLKDYQSRYPYQEQHQQCVDATNNHLRAVPKELASNPNPLNTDPEEWNKRLKRKLELSEELKKADEHPAPPSTQSENSEGNAAAPAATPAAETLSSIFAEDAFVEPENRNSEEAPTTTERPPNSFPYRVTNWHEKDDDTFEDPPEVHDILPEGFYEREGILRIGKPLEPSRISHTVVSTREFDNMTQHLSDAQGFVSKLRLFLQQMEDLVFHTLIESNEAFERKGYRYQMAVEGRLKRQKHRRDIEEERLRYEAAKVQDEADKREKIDEADLLLGAEVGEETPSPWVDDELEEKKRKKQKENEQYPAEEPQAPSPVPAGMIHIPETLSEQERKVQPTLADMFADPSTVAPINAQNIPWKQRDTRVANPFPYSNQPPVAFEAAGSNDTDAYSTLPHVIVLYVVNPFSYGAEGQSALHMRIALLSFIRAYNSIVGRLPFTKRTQLQLEIIGMESLDDMVKGIPDYLNDSQVPFDILHDYPVRNERPSESGQEAAARSLSVAVYTHPRVFTPEVYKAVSARCMTAFGPGSQLINTINNIEKMNQDAFYQMTKRSKTALNNMDGYMGMMGSHQVETKGHISYRIPSNIVCLAPPPAIYQMDEEGKPILNQLDEQTLFISYCLVGTEYLVATATDSQGKLIDNCIANMKPRRLHNQVYRYKNKTQILDGMGKLWSFILGVMSSDIKNWRLVVGRLGRIGHGEFRAWTHLLNKTSLLRYSSSLKDICGACRSMPSAIGTPAILSACLITLEPEPSIRIMPEFHDIDESIKKNLIFQTPGDLSCTHILTFPVGTEINLEVQDQAADTKGDENWEFGDLDIMEGLDDGDTEIMKDLGLETPSSAAIRQTGGVSMFFSEDSSSIEIQNQPLASGYYISTAPAPELPSWFWATCPSAKRHSPVHLKSSLHINISEVKNDDIAMESAKDKEKEKEEKDIHPLESRQTEEVLRHVLESYNALSWLNLNRQTGDRYSCLPIHVQHLLRLYHSVARLLV
Length3042
PositionMiddle
OrganismCaenorhabditis nigoni
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.08
Grand average of hydropathy-0.773
Instability index57.74
Isoelectric point6.24
Molecular weight345487.39
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. 


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

>MDP16226
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      86.62|      17|      17|    1358|    1374|       1
---------------------------------------------------------------------------
 1357- 1373 (35.59/14.82)	PPAYPPTPG.PYPPTTPT
 1374- 1391 (28.39/ 9.99)	YPGMTPRPGsSYGPGYPN
 2124- 2140 (22.65/ 6.15)	HPAPPSTQS.ENSEGNAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.52|      16|      17|    1500|    1515|       2
---------------------------------------------------------------------------
 1420- 1438 (20.57/ 6.46)	PGmgPmGMQRQFSNPQMYQ
 1500- 1515 (32.95/16.07)	PS..S.GPQNPYGAQMIPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.25|      17|      17|    1540|    1556|       3
---------------------------------------------------------------------------
 1540- 1556 (34.39/19.52)	QQQQMMQ..QQQQQQ.QHQQ
 1559- 1576 (26.59/13.38)	QHQLQLQ..RSQAHQiQHQP
 1577- 1595 (24.27/11.55)	NQQTIQQtpEQLQIQ.QSQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.91|      16|      17|     743|     759|       4
---------------------------------------------------------------------------
  743-  758 (30.39/19.70)	DKDKDKEKDKEKDKEK
  761-  776 (29.51/13.73)	EKDKEKDKEKEKDKEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.55|      16|      18|    1449|    1464|       7
---------------------------------------------------------------------------
 1403- 1417 (18.77/ 7.75)	.QM..GQMGgmNGMGGMP
 1449- 1464 (31.78/20.27)	RQMQAGQSG..YGAPGVP
 1468- 1483 (31.01/19.54)	QQSPGGPGG..FGVPSGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.94|      13|      19|    1317|    1335|       8
---------------------------------------------------------------------------
 1318- 1331 (24.21/ 9.84)	PPGATSPVpPPTPM
 1338- 1350 (26.73/11.40)	PLHHTSPF.SAGPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.36|      17|      19|     804|     820|       9
---------------------------------------------------------------------------
  804-  820 (30.32/14.04)	NGNSFADPTEDLYNPAG
  825-  841 (27.14/11.71)	EGDEISNESPDEKTPEG
  842-  855 (19.90/ 6.40)	SPNGSPRPKEDI.EP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.87|      44|      46|     624|     669|      10
---------------------------------------------------------------------------
  624-  669 (76.36/56.58)	YQFIRRK..WKWIRKKEIKFGGKAKKRFGIGSPQNFALNMMkfREKRK
  671-  716 (70.51/45.49)	YQPYHRKrpVKSVKEKKKKAKRKVKKFVKYANPNQFLASIS..RTKRK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.65|      30|      33|    2340|    2372|      11
---------------------------------------------------------------------------
 2342- 2372 (50.29/33.53)	P....WVDDELEEKKRKKQKENEQYPAeEPQAPSP
 2374- 2407 (47.36/21.04)	PagmiHIPETLSEQERKVQPTLADMFA.DPSTVAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.73|      23|      27|     379|     405|      12
---------------------------------------------------------------------------
  379-  405 (31.99/26.41)	QKIRWMfEPDLRQDKPKEEtaaEKEKR
  409-  431 (37.75/18.59)	REVRRL.RRQRREERRREQ...EKQRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.55|      15|      15|     582|     596|      13
---------------------------------------------------------------------------
  582-  596 (28.25/18.09)	FLSWKSQRANHFDTT
  599-  613 (26.31/16.30)	FVNRLFENADTFDET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.04|      14|      15|     470|     483|      15
---------------------------------------------------------------------------
  470-  483 (25.26/15.85)	IDNVRLLYPS.KFVC
  486-  500 (20.77/11.56)	VEEDRQMLESmGFKC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.91|      24|      27|    1929|    1954|      18
---------------------------------------------------------------------------
 1254- 1283 (33.51/15.18)	PATnkfDIQCQVERvtvPMAYKSMVTRNFE
 1931- 1954 (44.39/31.79)	PPA...EIPFVIEG...PMTWKQVVTKAIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.58|      26|      27|    2160|    2185|      19
---------------------------------------------------------------------------
 2160- 2185 (47.11/25.55)	FVEPENRNSEEAPTTTERPPNSFPYR
 2189- 2214 (49.47/27.27)	WHEKDDDTFEDPPEVHDILPEGFYER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.17|      23|      32|     514|     544|      20
---------------------------------------------------------------------------
  514-  544 (35.32/38.15)	PRNKNV..VNMSNpllstmavYQYVQNEKRAER
  549-  573 (37.85/22.57)	PRNKPVeiEPLSN........FEFLSNPEAARR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.95|      17|      46|    2600|    2616|      22
---------------------------------------------------------------------------
 2600- 2616 (31.46/21.43)	AFYQMTKRSKTALNNMD
 2649- 2665 (31.49/21.46)	AIYQMDEEGKPILNQLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.43|      25|      25|    1735|    1759|      23
---------------------------------------------------------------------------
 1690- 1712 (22.01/12.73)	.....CSCSVS.IRSRdlgmYITPHAVLS
 1735- 1759 (49.50/40.76)	NSATSCTCGFSAIRHR....YLSCCAGLF
 1761- 1781 (32.92/23.85)	EDADEAT....ASEHA....NASVIPPLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      57.39|      16|      19|     940|     958|      25
---------------------------------------------------------------------------
  940-  958 (22.68/27.50)	EAARRMkwlQLYRE...KAEKR
  961-  977 (20.15/12.11)	KTAR.....QCHRDylrQIAKR
  981-  992 (14.55/ 6.21)	KALRRL......RI...TAKK.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.73|      24|      44|     219|     243|      27
---------------------------------------------------------------------------
  219-  243 (45.36/32.06)	RWFTMPLVARDHYlHCMYPSHSPAI
  263-  286 (44.37/26.63)	RQPTLIKLARRHF.ECKTPKRFPVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.43|      27|      27|    1115|    1141|      28
---------------------------------------------------------------------------
 1106- 1132 (44.37/27.16)	LANDPSSYLFNAGHIRTLGEHIGPDGM
 1133- 1159 (43.47/26.42)	LSPPASNEMPKGGPLSVGPASIESQGL
 1163- 1187 (41.60/24.88)	YPTPPSVQMLQADASQAHSPSIG..GK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.61|      14|      27|    2051|    2064|      29
---------------------------------------------------------------------------
 2051- 2064 (23.89/18.32)	TASRYREVLKDYQS
 2079- 2092 (23.72/18.12)	TNNHLRAVPKELAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.12|      16|      33|    1611|    1629|      31
---------------------------------------------------------------------------
 1611- 1629 (21.31/22.76)	YQRRQIqLMNGlmPTSLQP
 1645- 1660 (32.80/19.82)	YKRQDI.IYNP..PNPAHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.83|      19|      23|    1785|    1803|      32
---------------------------------------------------------------------------
 1785- 1803 (35.48/22.61)	TIKTRDMMWFDP..QSVHDLA
 1805- 1825 (27.35/15.54)	TYQIRQMAFSNSlgKAVSQMA
---------------------------------------------------------------------------




































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 MDP16226 with Med13 domain of Kingdom Metazoa
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