<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 MDP05501

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMYLHETEKLNKMSTLLERLHAKYNQNRPWTETMKLVRQVTEKRVVMNSGGHQHLVSCLXTLQKALKVSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVGCPELVQHLREKNXDEFSKHLXGLVNLYKLPGDKQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGSGAPVILHENNGQQHCYFLNKDAPLPDGRSLQGTLXSKIAFQHPGRVPLILSLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFXVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGTNPLSGTTTPTSTFPGGPITTLFNMSISMKERHDSVGSHGEDFSKVSHNPILTSLLQITGNVGSAIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLXDNAPQDFSSLYGSSPLERQNSSSGSPRMEIPGGNKQKKKKSRAPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPATYPQPIPHTQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTTTEDCPPIGTPVRDSSSSGHSQSALFDPDVFQSNTSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQALTTLGVQVLGGDGGDNKFKGSTQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLSTGDIGKEKSQKRVKEGNGSGSSMAGAGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSXSGKMKSSKSEGSSGSKMSSSLYSGQGSSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSEKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSXSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKSVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSAEKHKKHKKEKKKVKDKDRDREREKDRDKKKSHSLKPESWSKSPISAEQPLAMGSSSILAAERPPRXSPEFLIGEEDDDLMDVALIDPPSFCVVNSSQMFSNNDEAVINKKLPKELLLRIFSFLDVVTLCRCAQVSRAWNVLALDGSNWQRIDLFDFQRDIEGRVVENISKRCGGFLRKLSLRGCLGVGDNALRTFAQNCRNIEVLXLNGCTKITDATCTSLSKFCSKLRHLDLASCTSITNLSLKALSEGCPLLEQLNISWCDQVTKDGIQALVRGCGGLKALFLKGCTQLEDEALKYIGAHCPELVTLNLQTCLQITDDGLITICRGCHKLQSLCASGCSNITDAILNALGQNCPRLRILEVARCSQLTDVGFTTLARNCHELEKMDLEECVQITDSTLIQLSIHCPRLQVLVSVPSETSSIFCAPKRRI
Length1773
PositionMiddle
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.04
Grand average of hydropathy-0.545
Instability index54.93
Isoelectric point8.62
Molecular weight187741.60
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:RU364059

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

>MDP05501
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     123.94|      23|      23|    1082|    1104|       1
---------------------------------------------------------------------------
  969-  995 (27.79/ 6.63)	GSSGSkMSsslYSGQGSSSSGQSKSSA
 1076- 1097 (35.31/10.79)	GSGG...S..hMSGTGSSSSMKSSSGM
 1098- 1121 (32.44/ 9.20)	GSSGS.MS..qKPPPSSNSSTASSSSF
 1122- 1139 (28.40/ 6.97)	SSSGS..S...M....SSSQNQHGSSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     239.88|      16|      24|    1604|    1619|       2
---------------------------------------------------------------------------
 1526- 1541 (24.20/11.49)	CLGVGDNALRTFAQNC
 1552- 1567 (26.45/13.22)	CTKITDATCTSLSKFC
 1578- 1593 (24.68/11.86)	CTSITNLSLKALSEGC
 1604- 1619 (25.32/12.35)	CDQVTKDGIQALVRGC
 1630- 1645 (25.23/12.29)	CTQLEDEALKYIGAHC
 1656- 1671 (31.03/16.73)	CLQITDDGLITICRGC
 1682- 1697 (27.49/14.01)	CSNITDAILNALGQNC
 1708- 1723 (28.36/14.68)	CSQLTDVGFTTLARNC
 1734- 1749 (27.14/13.75)	CVQITDSTLIQLSIHC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     590.83|     102|     106|    1186|    1287|       3
---------------------------------------------------------------------------
  465-  531 (48.49/11.13)	..............................................................GSAIGSSP........TPPHhtPPPvsSP....ASNT...KN...HPmlmnllxDNA...............PQDFSS...LYGsSPL..ERqNS...SS.G.SPRMEIP
  762-  856 (100.59/30.91)	GG..........D.NKFK...........................GSTQSDTV.DFSIIAAASKALGSSD....IMEHHSGG.qSPL..LStgdiGKEK...SQkrvKE.......GNG....SGS.....S....MAGAG..IDG.KPG..KR.SRtpsSD.G.KSKEKLP
  857-  954 (111.05/34.89)	.....KRKKQETDGKSPS...........................HSSSNRPF.TPPASTGGSKSPGSSGR.....SQTPPGvaTPP..I.....PKIT...IQ...IP........KGtvtvGKP.....SSHGQYTSS.....G.SVT..SS.SSkshHS.HsSSSSSSS
  955- 1063 (83.05/24.25)	SSS.xSGKMKSSKSE...gssgskmssslysgqgssssgqskssaQSV..GKP.GSSPITKHGLSSGS.GSTKM....KPQG..KPS..SL....MNPS...MS...KP.......NIS....PSH.....S.RPSGGSEK...LA.SPMkpVP.GT...............
 1196- 1301 (161.16/53.92)	GGEF.QGKREKSDKEKSK...........................VSVSGGSV.DSSKKTSDSKSVGSTGVAKIIISKHDGG..SPS..IK....AKVT...LQ...KP.......GEG....GGD.....SLRPQMASSK..SYG.SPL..IS.GStpkHErC.SPSHSKS
 1302- 1396 (86.51/25.57)	PA.Y.TPQNIDSESE.................................SGSSIaEKSYQNSPSSDDGIRPLPEYSAEKHKKH..KKE...K....KKVKdkdRD...RE.......REK....DRDkkkshSLKPESWSKSpiSAE.QPL..AM.GS...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     216.08|      48|      51|     541|     588|       4
---------------------------------------------------------------------------
  541-  584 (73.35/37.46)	.........SRAPADKP.......K..HQTEDDFQR..ELFSMD...V....DSQNPIFD.VNMTADTLDTP
  585-  642 (54.04/25.53)	HITPapsqcSTPPATYP.......QpiPHTQPSIQRmvRLSSSDsigA....DVTDILSD.IAEEASKL..P
  643-  697 (55.62/26.51)	TTTE.....DCPPIGTPvrdssssG..HS.....QS..ALFDPD...VfqsnTSENPYTDpADLIADAAVSP
  704-  735 (33.07/12.58)	HFFP..dgvDFNP.DLL.......N..SQSQSGFGE..EYF..D...E....SSQ.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.59|      16|      23|    1410|    1432|       7
---------------------------------------------------------------------------
 1166- 1181 (33.61/13.05)	GPGGDDPMD.GQMGPSS
 1415- 1431 (25.98/13.86)	GEEDDDLMDvALIDPPS
---------------------------------------------------------------------------




































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 MDP05501 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ALGSSDIMEHHSGGQSPLLSTGDIGKEKSQKRVKEGNGSGSSMAGAGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSXSGKMKSSKSEGSSGSKMSSSLYSGQGSSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSEKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSXSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKSVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSAEKHKKHKKEKKKVKDKDRDREREKDRDKKKSHSLKPESWSKSPISA
2) FNMSISMKERHDSVGSHGEDFSKVSHNPILTSLLQITGNVGSAIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLXDNAPQDFSSLYGSSPLERQNSSSGSPRMEIPGGNKQKKKKSRAPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPATYPQPIPHTQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTTTEDCPPIGTPVRDSSSSGHSQSALFDPDVFQSNTSENPYTDPADLIADAAVSPN
3) KNLPPASSPGYGMTTGTNPLSGTTTPTSTFPGG
787
425
387
1388
698
419










Molecular Recognition Features






MoRF SequenceStartStop




NANANA