<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 MDP21138

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMNLKYYASPSDLLDDKTTSPIILHENTVPRCLGMNASVTIEGTSSMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFEAQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGDTKFKGNSQADTVDFSIIAVAGKALGPADIMEHHSGSQSPLLTTGDLGKEKSQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKSSSHNQYTSSGSVSSSGSKSHHSHSSSSSSSASASGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSTLMNPSLSKPNISPSHSRPPGASDKLSSPMKPIPGTPPSSKAKSPISSGSGGSHISGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDQMDGQMGVSTNSSHSMSSKHNMSGGEFQGKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHRKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPENWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1361
PositionMiddle
OrganismTrichechus manatus latirostris (Florida manatee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Afrotheria> Sirenia> Trichechidae> Trichechus.
Aromaticity0.04
Grand average of hydropathy-0.724
Instability index53.73
Isoelectric point8.92
Molecular weight143996.31
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. 


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

>MDP21138
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     375.17|      40|      41|     866|     905|       1
---------------------------------------------------------------------------
  756-  781 (35.43/ 7.06)	GNGT.......SN....................SSLSG.....PGLD..S.KPGKRSRTPS
  782-  827 (44.59/11.54)	NDGK.......SKDKPPkrkkadTEG.KSP.SHSSSNR.....PFTPptS.TGGSKSPGSS
  866-  901 (55.74/16.99)	...........SSGSVS......SSGSKSHHSHSSSSS.....SSAS..A.SGKMKSSKSE
  902-  925 (35.12/ 6.91)	GSSS.............................SKLSS.....SMYS..S.QGSSGSSQSK
  926-  956 (43.83/11.17)	NSSQ.......SGGKPG......SSPITKH......GL.....SSGS..S.STKMK...PQ
  957- 1008 (38.85/ 8.73)	GKPStlmnpslSKPNIS......PSHSRPPGASDKLSSpmkpiPGTP..P.SSKAKSPISS
 1009- 1042 (39.52/ 9.06)	GSGG.....shISGTSS......SSGMKS....SSGLG.....SSGS..L.SQK....TPP
 1043- 1081 (46.23/12.34)	SSNS....ctaSSSSFS......SSGS....SMSSSQN.....QHGS..S.KGKSPSRNKK
 1210- 1246 (35.86/ 7.27)	...........NYGSPL......ISGSTPKHERGSPSH.....SKSP..AyTPQNLDSESE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     148.89|      46|      50|    1089|    1137|       2
---------------------------------------------------------------------------
 1089- 1121 (45.07/21.34)	.................DKLKHGVVTSGPGGEDQMdGQMGVSTNSSHSMS
 1122- 1163 (57.97/30.66)	SKHNmsGGEFQGKREKsDKDKSKVSTSG........GSVDSSKKTSESKN
 1175- 1205 (45.85/18.29)	SKHD..GGSPSIKAKV.TLQKPG.ESSGEGLRPQM...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     292.06|      40|      41|     566|     605|       3
---------------------------------------------------------------------------
  397-  439 (29.44/ 6.66)	....ST..igSS..PTP.....PHHTP.....PPVSSMAGNTKN...HPmlmN............llkDnPA.QDFS
  440-  463 (28.59/ 6.24)	TLY.GS....S...........PL........ERQNSSSGSPR.............................mEMCS
  464-  505 (39.99/11.93)	GSN.KTkkkkSS..RLP.....P.DKP.....KHQTEDD..FQRELFSM...D..............vD.SQ.NPIF
  506-  531 (29.98/ 6.93)	DVN.MT....ADtlDTP.....HI.TP.................A...P...S...............Q.CS.TPPT
  532-  572 (40.15/12.01)	TYPqPI....PH..PQP.....SIQRM.....VRLSSSDSIGPDV...T...D............ilsD.IA.EEAS
  573-  627 (57.53/20.70)	KLP.ST....SD..DCP.....PIGTP.....VRDSSSSGHSQSALFDP...DvfqtnnnenpytdpaD.LI.ADAA
  628-  681 (33.50/ 8.69)	GSP.SS........DSPtnhffPDGVDfnpdlLNSQSQSGFGEE.YFDE...S........sqsgdndD.FK.GFAS
  682-  730 (32.87/ 8.38)	QAL.NT....L...GVP.....MLGGD.....NGDTKFKGNSQADTVDF...S...iiavagkalgpaD.IM.EH..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     198.09|      49|      53|     135|     187|       4
---------------------------------------------------------------------------
   91-  134 (60.91/35.68)	PIPVS...RA..FVQKL...QNC.......TGIP..LF.EAQPTYVPLYELITqFelsKDPD
  135-  183 (93.67/62.04)	PIPLN...HNMRFYAALPGQQHCY...FLNKDAP..LP.DGRSLQGTLVSKIT.F...QHPG
  189-  238 (43.51/32.90)	...LNlirHQVA.YNTLIGS..CVkrtILKEDSPglLQfEVCPLSESRFS.VS.F...QHP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.03|      17|      19|     322|     339|       6
---------------------------------------------------------------------------
  322-  339 (30.58/22.93)	PPASSPGYGMTTGNNpMS
  344-  360 (34.45/20.22)	PTNTFPGGPITTLFN.MS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.90|      12|      17|    1275|    1286|       7
---------------------------------------------------------------------------
 1275- 1286 (20.40/13.09)	EKHRKHKKEKKK
 1293- 1304 (20.49/13.18)	DRDRDKDRDKKK
---------------------------------------------------------------------------




































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 MDP21138 with Med1 domain of Kingdom Metazoa
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