<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 MDP01549

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMNVNTFKCYLIGEFVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAGIGESGGMQSATSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPTISQPGFSAGPSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPTLYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSHPESSDKWWHSFHLPPSDDAEFRPPELQGERCDAKMEVNTESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTHLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPMKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQNTFLPHMEGAKKTQETPISLLLLLQNQHTQPFASLSFLDYICSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHAWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATSGNAGPLASNSGSAAPQAGSAFNPTSNGSSANPAASTSAPSSSVPPVSSSASAPGINQMSTTSSSGFSGSVGGQIPGTGGGSTDRTQGNISCGGDTEPGQGSSQPSQDGQESVTDRERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSPRKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAEHLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPIHFVVLTQLYNAIMNIL
Length2119
PositionMiddle
OrganismFukomys damarensis (Damaraland mole rat) (Cryptomys damarensis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Fukomys.
Aromaticity0.07
Grand average of hydropathy-0.406
Instability index58.01
Isoelectric point5.69
Molecular weight232834.89
Publications









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

>MDP01549
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     385.38|     119|     443|     724|     905|       1
---------------------------------------------------------------------------
  756-  880 (191.53/163.71)	DGRAAVPYPPTVADLQRMfpTPPSLEQhP....AFSPVMNYKDGISSETVTALGMMESPMVSmvSTHLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPfVGSSMFAPMKMLP.SHCL.LPLKIPDACL
  905- 1029 (193.85/76.84)	DGYNNVPSVGSLADPDYL..NTPQMNT.PvtlnSAAPASNSGAGVLPSPATPRFSVPTPRTP..RTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRP.LNSVEPATMQPIPeAHSLyVTLILSDSVM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.91|      20|      21|    1510|    1529|       2
---------------------------------------------------------------------------
 1488- 1507 (32.41/15.71)	SAPSSSVPPVSSSASA.PGIN
 1510- 1529 (36.39/18.72)	STTSSSGFSGSVGGQI.PGTG
 1532- 1551 (31.11/14.73)	STDRTQG.NISCGGDTePGQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.16|      13|      26|    1940|    1962|       3
---------------------------------------------------------------------------
 1919- 1931 (25.80/ 6.53)	PANYPNEDGF........SPN
 1942- 1962 (18.36/23.30)	PDDMDNDIGIlmtgnlhsSPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.04|      23|      26|    1650|    1675|       4
---------------------------------------------------------------------------
 1653- 1675 (44.77/33.35)	YIQYLKSM..AFSVYCQCR...RPLPTQ
 1677- 1704 (30.27/12.40)	HIKSLTGFgpAASIEMTLKnpeRPSPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     446.30|     111|     112|     268|     378|       5
---------------------------------------------------------------------------
  247-  357 (176.11/84.12)	GESGGmQSATSHLGSQDGG..............................miTM.HSPKRSGKIP..PKLHNHMVHRVWKE.CILNRTQSKRSQMS..TPTLEEEPANNPATWD..FVDPT.QR.VSCSCSRHKL.L..KRCAVGPNR...P.PTIS.QP
  358-  472 (137.48/63.93)	GFSAG.PSSSSLPPPASSKHKT...............................tERQEKGDKLQkrPLIPFHHRPSVAEElCMEQDTPGQKLGLAgiDSSLE...VSSSRKYDkqMAVPS.RN.TSKQMNLNPMdS..PHSPISP.L...P.PTLSpQP
  473-  614 (132.71/61.44)	...RG.QETESLDPPSVPVNPTlygnglelqqlstlddrtvlvgqrlplmaEV.SETALYCGIR..PS.HPESSDKWWHS...FHLPPSDDAEFR..PPELQGERCDAKMEVN..TESTAlQRlLAQPNKRFKI.WqdKQPQMQPLHfldPlPLSQ.QP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.85|      25|      27|    1768|    1794|       6
---------------------------------------------------------------------------
 1768- 1794 (40.94/33.51)	I...ALPNRSRRSKVSprKIGLQKLWEWCI
 1797- 1824 (39.91/24.94)	VqmtSLPWRVVIGRLG..RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.27|      32|    1265|      66|      99|       7
---------------------------------------------------------------------------
   66-   99 (52.23/50.51)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1334- 1365 (59.04/45.73)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.57|      15|      16|    1452|    1466|       8
---------------------------------------------------------------------------
 1452- 1466 (27.76/14.48)	GNAGPLASNSGSAAP
 1469- 1483 (28.81/15.34)	GSAFNPTSNGSSANP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.09|      14|      16|    1145|    1159|       9
---------------------------------------------------------------------------
 1145- 1159 (23.40/18.88)	PFASLSFlDYI.CSNN
 1164- 1178 (24.69/14.58)	PCVSWSY.DRVqADNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|    1036|    1060|      10
---------------------------------------------------------------------------
 1036- 1060 (51.64/35.40)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1063- 1091 (36.91/22.99)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.09|      17|      24|    1285|    1301|      11
---------------------------------------------------------------------------
 1285- 1301 (32.92/19.05)	SPEPLPI.PTLLV...GYDKD
 1306- 1326 (23.18/10.80)	SPFSLPFwERLLLdpyGGHRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.86|      19|      24|    1607|    1626|      12
---------------------------------------------------------------------------
 1607- 1626 (31.05/22.24)	NFWLLSLMRCyTEMLDNLPE
 1630- 1648 (34.81/19.74)	NSFILQIVPC.QYMLQTMKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.56|      20|      24|     695|     717|      13
---------------------------------------------------------------------------
  695-  717 (28.41/24.30)	DNAAGRAGSSSLTQVTdlaPSLH
  720-  739 (34.15/20.54)	DNIFDNSDDDELGAVS...PALR
---------------------------------------------------------------------------




































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 MDP01549 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVP
2) CAVGPNRPPTISQPGFSAGPSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPTLYGNGLELQ
3) DDAEFRPPELQGERCDAKMEVNTESTALQR
4) GILMTGNLHSSPNSSPVPSPGSPGIGVGSHFQHSRSQGERLLSREAPE
5) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTD
6) KECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPT
7) PPKYQTPPAAAQGQATSGNAGPLASNSGSAAPQAGSAFNPTSNGSSANPAASTSAPSSSVPPVSSSASAPGINQMSTTSSSGFSGSVGGQIPGTGGGSTDRTQGNISCGGDTEPGQGSSQPSQDGQESVTDRERIGIPTEPDSA
8) SVASTGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAGIGESGGMQSATSHLGSQDGGMITMHSPKRSGKIPPKLHN
9) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
713
344
551
1950
645
292
1435
207
913
762
499
580
1997
711
328
1578
284
1010










Molecular Recognition Features






MoRF SequenceStartStop




1) KRFKIW
587
592