<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 MDP28401

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEAHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEESKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGMPSATSHLGSQDGGVITMQSPKRSGRIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLFKRCAVGPNRPSTISQPGFSAGPSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPTLYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWHSFRLPPSDDAEFRPPELQGERCDAKMEVNTESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDGLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTHLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPMKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQNTFLPQMEGAKKTQETPISLLLLLQNQHTQPFAPLSFLDYICSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHAWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAPQGQATPGNAGPLASNSGSAAPQAGSAFNPTSNGSSTNPAASTSASSSSVPPVSSSASAPGVNQMSTTSSSGFSGSVGGQNPGTGGSSTDRTQGNISCGGDTEPGQGSSQPSQDGQESVTDRERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLHGELLETCIVNIALPNRSRKSKVSPRKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAEHLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2106
PositionMiddle
OrganismHeterocephalus glaber (Naked mole rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Heterocephalus.
Aromaticity0.07
Grand average of hydropathy-0.411
Instability index58.11
Isoelectric point5.68
Molecular weight231192.92
Publications
PubMed=21993625

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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

>MDP28401
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      95.34|      21|      21|    1422|    1442|       1
---------------------------------------------------------------------------
  875-  901 (26.26/10.77)	PPKIEQlpmPPAATfirD.GYN.NVPSVG
 1422- 1442 (41.28/22.36)	PPKYQT...PPAAP...Q.GQA.TPGNAG
 1443- 1465 (27.81/11.97)	PLASNS...GSAAP...QaGSAfNPTSNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.61|      19|      21|    1497|    1516|       2
---------------------------------------------------------------------------
 1497- 1516 (31.25/18.09)	STTSSSGfSGSVGGQ.NPGTG
 1519- 1538 (35.35/16.32)	STDRTQG.NISCGGDtEPGQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.11|      20|      22|     453|     472|       4
---------------------------------------------------------------------------
  453-  472 (37.46/19.00)	PTLSPQP.RGQETESLDPPSV
  476-  496 (29.65/13.32)	PTLYGNGlELQQLSTLDDRTV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.79|      16|      23|    1589|    1611|       5
---------------------------------------------------------------------------
 1594- 1611 (27.16/30.34)	NFWLLSLMRC.YteMLDNL
 1617- 1633 (26.63/ 9.58)	NSFILQIVPCqY..MLQTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.16|      13|      23|    1927|    1949|       6
---------------------------------------------------------------------------
 1906- 1918 (25.80/ 7.27)	PANYPNEDGF........SPN
 1929- 1949 (18.36/26.26)	PDDMDNDIGIlmtgnlhsSPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.67|      46|     547|     580|     631|       7
---------------------------------------------------------------------------
  580-  631 (80.69/56.92)	QDKQPQ.MQPLHFLD........PLPLSQQPGDGLGEVNDPYTFEdgdikyIFTANKKCKQ
 1126- 1180 (76.98/42.44)	QNQHTQpFAPLSFLDyicsnnrqTLPCVSWSYDRVQADNNDYWTE......CFNALEQGRQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.84|      40|     547|     399|     442|       8
---------------------------------------------------------------------------
  399-  442 (61.56/41.36)	TPGQKLGlAGIDSSlevSSSRKYDK.QMAVPSRNTSKQMNLNPMD
  952-  992 (67.29/34.99)	TPRTPRG.GGTASG...QGSVKYDStDQGSPASTPSTTRPLNSVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.34|      12|      27|    1770|    1781|       9
---------------------------------------------------------------------------
 1770- 1781 (24.58/19.69)	KIGLQKLWEWCI
 1800- 1811 (22.75/17.51)	RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.09|      17|      23|    1272|    1288|      10
---------------------------------------------------------------------------
 1272- 1288 (32.92/16.80)	SPEPLPI.PTLLV...GYDKD
 1293- 1313 (23.18/ 9.56)	SPFSLPFwERLLLdpyGGHRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.31|      21|      23|     718|     739|      11
---------------------------------------------------------------------------
  717-  738 (30.54/21.32)	ELGAVSPALRSSKmPTVGTEDR
  739-  759 (37.77/21.78)	PLGKDGRAAVPYP.PTVADLQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.27|      32|    1265|      53|      86|      13
---------------------------------------------------------------------------
   53-   86 (52.23/49.08)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1321- 1352 (59.04/44.46)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.62|      15|      24|    1030|    1044|      14
---------------------------------------------------------------------------
 1030- 1044 (31.09/18.17)	CACN....MNIK.GADVGLY
 1056- 1075 (22.53/11.22)	CTCGfsaiMNRKlGYNSGLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.79|      13|      23|    1849|    1861|      15
---------------------------------------------------------------------------
 1849- 1861 (24.21/15.22)	AMEPQGSFVVMPD
 1874- 1886 (22.58/13.59)	ALNMQSSQLNTPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.82|      26|     579|     336|     371|      16
---------------------------------------------------------------------------
  336-  365 (40.48/22.27)	NRPSTIsqpGfSAGPSSSS....LPPPASSKHKT
  915-  944 (40.34/11.96)	NTPVTL...N.SAAPASNSgagvLPSPATPRFSV
---------------------------------------------------------------------------




































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 MDP28401 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVP
2) AVGPNRPSTISQPGFSAGPSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPTLYGNGLELQ
3) ECILNRTQSKRSQMSTPTLEEEPANNPATWDFV
4) GILMTGNLHSSPNSSPVPSPGSPGIGVGSHFQHSRSQGERLLSREAPE
5) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTD
6) IPPKYQTPPAAPQGQATPGNAGPLASNSGSAAPQAGSAFNPTSNGSSTNPAASTSASSSSVPPVSSSASAPGVNQMSTTSSSGFSGSVGGQNPGTGGSSTDRTQGNISCGGDTEPGQGSSQPSQDGQESVTDRERIGIPTEPDSA
7) ITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGMPSATSHLGSQDGGVITMQSPKRSGRIPPKLH
8) SDKWWHSFRLPPSDDAEFRPPELQGERCDAKMEVNTESTALQ
9) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
700
332
280
1937
632
1421
202
525
900
749
486
312
1984
698
1565
270
566
997










Molecular Recognition Features






MoRF SequenceStartStop




1) KRFKIW
574
579