<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 MDP16224

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMIFIKVQLFISVYHFLSVSKLSITSSKDNSAKVSSQQSQPFYSEASKTPSGSGPVRDSTEDMASSKEGEKDASRKVKVPKRPEVNNGGSLEDCISNVFSLLELPGIKWKCFRPKLNAPRGVVPLTSDLVLKAYSRCLTDGILCTWRRKPSPPTGNNELLPPTHYFSNDSPKELWVFWYDAEPTALAKYCEGLDSDEELSSANQMNIVSYEVRTILFKALHVVLERDLTKDGFVRFGRWFTMPLVARDHYLHCMYPSHSPAIRFNFFVHGTSTICASIQAQRQPTLIKLARRHFECKTPKRFPVVVGPWSMRGYLIADQMTLLADPKIQEAAEKEWNQWKEYLQLEEKEPENVAEERQKTPEAEPSAPPQTTRVLLASSSDEDQEKSGGEEKNEEVSQKIRWMFEPDLRQDKPKEETAAEKEKRMAAREVRRLRRQRREERRREQEKQRRADDNQEDYDSDVVTDQEEDEAGKEEIVNNDVPKMILIEIDNVRLLYPSKFVCITVEEDRQMLESMGFKCHPMPQELQVPGRRPRNKNVVNMSNPLLSTMAVYQYVQNEKRAEREHFYPRNKPVEIEPLSNFEFLSNPEAARRVKPPKSPTFLSWKSQRANHFDTTDIFVNRLFENADTFDETPRPIKFACLSYQFIRRKWKWIRKKEIKFGGKAKKRFGIGSPQNFALNMMKFREKRKEYQPYHRKRPVKSVKEKKKKAKRKVKKFVKYANPNQFLASISRTKRKFNAWKQKMNGPPPKKGPAKKEAAADKDKDKDKEKDKEKDKEKDKEKDKEKDKEKEKDKEKDKENEDDPFVMDKVSQLDWANFSEDETNGNSFADPTEDLYNPAGGELEEGDEISNESPDEKTPEGSPNGSPRPKEDIEPFVPITHPAAKPSNIEWDLGREVDDMTEELEYVPKEDHITQDPKKVKNGHIPISEFAKDNQFYHGEICRLGLRGYKKICAERDREEAARRMKWLQLYREKAEKRNIKTARQCHRDYLRQIAKRCLRKALRRLRITAKKDALAPPPPKPKPVDPVLKKKEDAKKFEMSMKMMERDLGNLDMSAFCQIREKAGPHGVQSTAGYMKPNYTNSPHGSFDHDSESEIDEQRTGLGEGTSDQYQDGESVDMIDIERELANDPSSYLFNAGHIRTLGEHIGPDGMLSPPASNEMPKGGPLSVGPASIESQGLNQIYPTPPSVQMLQADASQAHSPSIGGKFRSTANDDIERAVAPGKTIVDVEIEDIETRNMQRWSKIANQSKLSKFLVASRDNPILKGRKKKYDTPATNKFDIQCQVERVTVPMAYKSMVTRNFECAPPHTFAELIRQSRTGIKKYTRPLQIQSTLARPPPGATSPVPPPTPMFNPHTLPLHHTSPFSAGPMSHHSMGPPAYPPTPGPYPPTTPTYPGMTPRPGSSYGPGYPNHHQMMPPGYPNQMGQMGGMNGMGGMPGMPGMGPMGMQRQFSNPQMYQHHQMMRMQQMRQMQAGQSGYGAPGVPQYPQQSPGGPGGFGVPSGPSSVQRLNNFVNQSQFGPSSGPQNPYGAQMIPQSPSFNQPYPGMGNQMMSPMQQHQFQQQQMMQQQQQQQQHQQQQQHQLQLQRSQAHQIQHQPNQQTIQQTPEQLQIQQSQQVQAVFQQLPDREKRKYQRRQIQLMNGLMPTSLQPASIKALKNPPDANIPYKRQDIIYNPPNPAHPRGDSLTIAIVLSDTLLDLHFDSVFDACPICSCSVSIRSRDLGMYITPHAVLSSREIGETNKREYTTGTWSGFHVNSATSCTCGFSAIRHRYLSCCAGLFDEDADEATASEHANASVIPPLFSRNTIKTRDMMWFDPQSVHDLALTYQIRQMAFSNSLGKAVSQMATEKEHRRNITNAVDIGTDITVPTEYVLSHVDTLELMMLGMSALGPMQTPETTGSQLPPQSKYLSYFHPWGFQTANEIAELESSEWVDLLDIVTPTLESSMKQARRPPAEIPFVIEGPMTWKQVVTKAIRGKPPTDEDEDFSLAEPVPAVMRALEQEAVRAAPNIEQYYDQAELGPVDQPKDVMYITIIPDNDDIYERTVKFMDTMTETYERMRLGRHIPFPVSTGTASRYREVLKDYQSRYPYQEQHQQCVDATNNHLRAVPKELASNPNPLNTDPEEWNKRLKRKLELSEELKKADEHPAPPSTQSENSEGNAAAPAATPAAETLSSIFAEDAFVEPENRNSEEAPTTTERPPNSFPYRVTNWHEKDDDTFEDPPEVHDILPEGFYEREGILRIGKPLEPSRISHTVVSTREFDNMTQHLSDAQGFVSKLRLFLQQMEDLVFHTLIESNEAFERKGYRYQMAVEGRLKRQKHRRDIEEERLRYEAAKVQDEADKREKIDEADLLLGAEVGEETPSPWVDDELEEKKRKKQKENEQYPAEEPQAPSPVPAGMIHIPETLSEQERKVQPTLADMFADPSTVAPINAQNIPWKQRDTRVANPFPYSNQPPVAFEAAGSNDTDAYSTLPHVIVLYVVNPFSYGAEGQSALHMRIALLSFIRAYNSIVGRLPFTKRTQLQLEIIGMESLDDMVKGIPDYLNDSQVPFDILHDYPVRNERPSESGQEAAARSLSVAVYTHPRVFTPEVYKAVSARCMTAFGPGSQLINTINNIEKMNQDAFYQMTKRSKTALNNMDGYMGMMGSHQVETKGHISYRIPSNIVCLAPPPAIYQMDEEGKPILNQLDEQTLFISYCLVGTEYLVATATDSQGKLIDNCIANMKPRRLHNQVYRYKNKTQILDGMGKLWSFILGVMSSDIKNWRLVVGRLGRIGHGEFRAWTHLLNKTSLLRYSSSLKDICGACRSMPSAIGTPAILSACLITLEPEPSIRIMPEFHDIDESIKKNLIFQTPGDLSCTHILTFPVGTEINLEVQDQAADTKGDENWEFGDLDIMEGLDDGDTEIMKDLGLETPSSAAIRQTGGVSMFFSEDSSSIEIQNQPLASGYYISTAPAPELPSWFWATCPSAKRHSPVHLKSSLHINISEVKNDDIAMESAKDKEKEKEEKDIHPLESRQTEEVLRHVLESYNALSWLNLNRQTGDRYSCLPIHVQHLLRLYHSVARLLV
Length3060
PositionMiddle
OrganismCaenorhabditis nigoni
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.08
Grand average of hydropathy-0.766
Instability index57.38
Isoelectric point6.31
Molecular weight347463.73
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

>MDP16224
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      86.62|      17|      17|    1376|    1392|       1
---------------------------------------------------------------------------
 1375- 1391 (35.59/14.95)	PPAYPPTPG.PYPPTTPT
 1392- 1409 (28.39/10.09)	YPGMTPRPGsSYGPGYPN
 2142- 2158 (22.65/ 6.21)	HPAPPSTQS.ENSEGNAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.52|      16|      17|    1518|    1533|       2
---------------------------------------------------------------------------
 1438- 1456 (20.57/ 6.16)	PGmgPmGMQRQFSNPQMYQ
 1518- 1533 (32.95/15.29)	PS..S.GPQNPYGAQMIPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.25|      17|      17|    1558|    1574|       3
---------------------------------------------------------------------------
 1558- 1574 (34.39/20.15)	QQQQMMQ..QQQQQQ.QHQQ
 1577- 1594 (26.59/13.77)	QHQLQLQ..RSQAHQiQHQP
 1595- 1613 (24.27/11.86)	NQQTIQQtpEQLQIQ.QSQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.91|      16|      17|     761|     777|       4
---------------------------------------------------------------------------
  761-  776 (30.39/18.39)	DKDKDKEKDKEKDKEK
  779-  794 (29.51/12.83)	EKDKEKDKEKEKDKEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.79|      16|      18|    1467|    1482|       7
---------------------------------------------------------------------------
 1467- 1482 (31.78/15.49)	RQMQAGQSGYGAPGVP
 1486- 1501 (31.01/14.93)	QQSPGGPGGFGVPSGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.94|      13|      19|    1335|    1353|       8
---------------------------------------------------------------------------
 1336- 1349 (24.21/11.23)	PPGATSPVpPPTPM
 1356- 1368 (26.73/13.00)	PLHHTSPF.SAGPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.46|      17|      19|     822|     838|       9
---------------------------------------------------------------------------
  822-  838 (30.32/12.96)	NGNSFADPTEDLYNPAG
  843-  859 (27.14/10.80)	EGDEISNESPDEKTPEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.65|      30|      33|    2358|    2390|      10
---------------------------------------------------------------------------
 2360- 2390 (50.29/32.45)	P....WVDDELEEKKRKKQKENEQYPAeEPQAPSP
 2392- 2425 (47.36/20.43)	PagmiHIPETLSEQERKVQPTLADMFA.DPSTVAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.87|      44|      46|     642|     687|      11
---------------------------------------------------------------------------
  642-  687 (76.36/51.87)	YQFIRRK..WKWIRKKEIKFGGKAKKRFGIGSPQNFALNMMkfREKRK
  689-  734 (70.51/41.67)	YQPYHRKrpVKSVKEKKKKAKRKVKKFVKYANPNQFLASIS..RTKRK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.23|      12|      44|    1410|    1425|      12
---------------------------------------------------------------------------
 1410- 1421 (27.40/11.58)	HHQMMPPGYPNQ
 1545- 1556 (23.83/12.86)	GNQMMSPMQQHQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.55|      15|      15|     600|     614|      14
---------------------------------------------------------------------------
  600-  614 (28.25/20.42)	FLSWKSQRANHFDTT
  617-  631 (26.31/18.40)	FVNRLFENADTFDET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.87|      24|      44|     237|     261|      15
---------------------------------------------------------------------------
  237-  261 (45.21/32.17)	RWFTMPLVARDHYlHCMYPSHSPAI
  281-  304 (44.66/27.02)	RQPTLIKLARRHF.ECKTPKRFPVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.74|      24|      44|     940|     963|      16
---------------------------------------------------------------------------
  939-  962 (42.18/29.64)	ICRLGLRGYKKICAERDREEAARR
  963-  982 (28.77/17.46)	MKWLQL..YRE.KAEKRNIKTAR.
  984- 1003 (30.79/19.29)	.CH...RDYLRQIAKRCLRKALRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.73|      23|      27|     397|     423|      17
---------------------------------------------------------------------------
  397-  423 (31.99/26.31)	QKIRWMfEPDLRQDKPKEEtaaEKEKR
  427-  449 (37.75/18.53)	REVRRL.RRQRREERRREQ...EKQRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.97|      19|      19|    1074|    1092|      18
---------------------------------------------------------------------------
 1074- 1092 (36.50/18.82)	MKPNYTNSPHGSFD..HDSES
 1094- 1114 (25.47/10.79)	IDEQRTGLGEGTSDqyQDGES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.91|      24|      27|    1947|    1972|      20
---------------------------------------------------------------------------
 1272- 1301 (33.51/ 9.96)	PATnkfDIQCQVERvtvPMAYKSMVTRNFE
 1949- 1972 (44.39/20.91)	PPA...EIPFVIEG...PMTWKQVVTKAIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.58|      26|      27|    2178|    2203|      21
---------------------------------------------------------------------------
 2178- 2203 (47.11/21.18)	FVEPENRNSEEAPTTTERPPNSFPYR
 2207- 2232 (49.47/22.60)	WHEKDDDTFEDPPEVHDILPEGFYER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.43|      25|      25|    1753|    1777|      22
---------------------------------------------------------------------------
 1708- 1730 (22.01/11.93)	.....CSCSVS.IRSRdlgmYITPHAVLS
 1753- 1777 (49.50/39.07)	NSATSCTCGFSAIRHR....YLSCCAGLF
 1779- 1799 (32.92/22.70)	EDADEAT....ASEHA....NASVIPPLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.22|      16|      17|    1200|    1215|      25
---------------------------------------------------------------------------
 1200- 1215 (27.86/20.06)	PSIG.GK.FRSTANDDIE
 1216- 1233 (16.36/ 8.25)	RAVApGKtIVDVEIEDIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.61|      14|      25|    2069|    2082|      26
---------------------------------------------------------------------------
 2069- 2082 (23.89/14.76)	TASRYREVLKDYQS
 2097- 2110 (23.72/14.60)	TNNHLRAVPKELAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.47|      22|      25|    1124|    1147|      28
---------------------------------------------------------------------------
 1124- 1147 (34.48/27.68)	LANDPSSYLFNAghIRTLG.EHIGP
 1150- 1164 (29.41/15.55)	MLSPPASNEMPK......G....GP
 1165- 1182 (26.57/13.18)	LSVGPAS.......IESQGlNQIYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.10|      19|      26|     551|     571|      29
---------------------------------------------------------------------------
  551-  571 (30.36/23.12)	YQYVQNEKRAERehFYPRNKP
  580-  598 (33.74/18.63)	FEFLSNPEAARR..VKPPKSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.83|      19|      23|    1803|    1821|      30
---------------------------------------------------------------------------
 1803- 1821 (35.48/20.56)	TIKTRDMMWFDP..QSVHDLA
 1823- 1843 (27.35/14.14)	TYQIRQMAFSNSlgKAVSQMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.67|      20|      23|    2504|    2523|      31
---------------------------------------------------------------------------
 2504- 2523 (32.28/19.37)	NSIVGRLP.FTKRTQLQLEII
 2529- 2549 (30.39/17.75)	DDMVKGIPdYLNDSQVPFDIL
---------------------------------------------------------------------------




































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 MDP16224 with Med13 domain of Kingdom Metazoa
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