<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 MDP22220

Description Mediator of RNA polymerase II transcription subunit 1
SequenceAKHNAARPWQETSKIVRQAMEKRGVMNSAGHQLLLSCLETLQKALKGKALLVITTQTNVIFKYRSVLGSHLSPSETECYITSDMFYVEVQLDSSGQLVDVKVAHHGENPAVREMLTQMFREKNFDEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSIEMDLTKMMHMFRLATSANTVETILHGSVGLLTLRSGGNLLSLQCYVSPYDIFEEVPHSLGVSVYVTVEGTSAVYKLPIAPLIMGSHPVDNKGTPTFSPVTNSNCVDLPACFFLKMNCPMPFSLSFIQKMGNVTGISVFESAPTLSSLYDLIIKSQLGEEEGASPPASGRSMRFYAALPGQQHCYFLNGDAPVQDGRSLQGALVSKIPFRHPAHVPPLLEIIRHQAAYNTLIGSCVKKTYIKEDTPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVACKLYKGLSDALICTDEFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPTGSPGYMGMGPGPDGNNPLGLPSVGGATPTGGSGPSQHSHGSDDFSKVTQNPILTSLLQITGSVGSSPTPQASAGSQPHQTPPPTTSPASNTKNHPMLMNLLKDNPSQDFAALYGSSPLERQNSSGSPRTDSQGQPCSAGGPKGKKKRPRHHHTHHPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSAQSQPGSLQRMVRLSSSDSIGPDINDILSDIPDQATKGSSGSHGQHHMGGEEGGSLGTPLRDSSSSGQGSTVFDSDLFNANSNENPFADPADLIAEATTAATPNSDASSSNFFPDTDFNPELLSGQGTFSQSYFEDSSPSPDPDLDLVKGFSGGSQQNTPSGTPQNPTSHGRNTPDASLKDPFDIGLVFGGSSGGGKPLLGPAPDMGDPHPTHGVGGQSPLMMSMGVGSDFKSSEVKVKQQQMRPKEDNGGGNSGMGMGGSGSSEGKQMKRSRTPSSEGKSKEKPPKRKKLDPDGKSPSHSSGGRPYTPPSGSASSGGSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPRIGGKTSSHGGYTSSSSTGGSSGGASGTSSSKSHHSHSSSSGKIKSSKMEGSMGQGNSSKPTSTGGGGSGMSSQSKSSSLGMGSGKPGSSPVTKHGMSGSGSGGSSGGVSGNKIKPQGGKPPGSMMNPNIKPNISPSHSRSGNSDKLSSPLKHQQGQVPGTPPSSKAKSPIGSGGGSLGGSKSSSSGGMSSQKQLGSGSSSGSSSSSNSSASSSSSSGSMSFSSSGQAQYGGGSGSGGGGGGGGGGGGGGGGNNPNAKGKSPSRNKKPSLIAVIDKLKSVGSGGIGGEEGEGGGCGGNGNSSGSGGGVPQNIGHASSKQGISSQGGEYLNKRDKSEKESKSKVSVSGGSSSDKKLMDQKSGGVSSTGVAKIIISKSDGGSPSIKSKVTLQKPGEGAGEGSMRSQHSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQAMRPIQPPQDYMSSMSVSLGEKHKKHKKEKKKQKDRERDRDRDRDRDRERDREKEKKKSAMSCAPSSHPMKADSWSRSPMSSSETSMSMLGSERPPRPSSPMYMHTEDDDLMDSALTGNL
Length1653
PositionMiddle
OrganismAstyanax mexicanus (Blind cave fish) (Astyanax fasciatus mexicanus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Characiformes> Characoidei> Characidae> Astyanax.
Aromaticity0.04
Grand average of hydropathy-0.667
Instability index57.28
Isoelectric point9.00
Molecular weight171354.29
Publications
PubMed=25329095

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

>MDP22220
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     485.91|      60|      60|     986|    1045|       1
---------------------------------------------------------------------------
  814-  877 (46.67/ 6.55)	TAATPNSDASSSNFFP.....DT..D......FNP..ELLS.GQGTFSQSYFEDSSP.SPdpdldlVKGfsG.....GSQqnTP...SG
  878-  939 (54.43/ 9.13)	TPQNPTSHGR...NTPDASLKDP.fD....iGLVF..GGSSgGGKPLLGPAPDMGDP.HP......THG..V.....GGQ..SP.lmMS
  986- 1045 (113.96/28.96)	RSRTPSSEGKSKEKPPKRKKLDP..D.....GKSP..SHSS.GGRPYTPPSGSASSG.GS......ISG..G.....GSK..SP...GS
 1048- 1099 (63.35/12.10)	RSQTPP..GGATPPIPKITIQIPriG.....GKTS..SH...GG..YT...SSSSTG.GS.......SG..G.....ASG..TS...SS
 1100- 1145 (47.75/ 6.91)	KSHHSHSSSSGKIKSSKM.......E.....G.SM..GQGN.SSKP.......TSTG.GG......GSG..M.....SSQ..SK...S.
 1146- 1192 (49.08/ 7.35)	.....SSLGMGSGKP................GSSPvtKHGM.SG......SGSGGSS.GG......VSG..NkikpqGGK..PP...GS
 1195- 1248 (56.24/ 9.74)	NPNIKPNISPSHSRSGNSDKLS...........SP.lKHQQ.GQVPGTPPSSKAKSPiGS........G..G.....GSL.......GG
 1319- 1382 (54.43/ 9.13)	GGNNPNAKGKS....PSRNK.KP..SliaviDKLK..SVGS.GGIGGEEGEGGGCGGnGN......SSG..S.....GGG..VPqniGH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.29|      23|      30|    1249|    1271|       2
---------------------------------------------------------------------------
 1249- 1271 (41.01/13.54)	SKSSSSGGM....SSQKQLGSGSSSGS
 1280- 1306 (35.55/10.50)	SSSSSSGSMsfssSGQAQYGGGSGSGG
 1448- 1468 (27.74/ 6.15)	SPSIKS.KV....TLQKP.GEGAGEGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     660.54|     168|     178|     221|     392|       3
---------------------------------------------------------------------------
  221-  388 (280.28/123.33)	.......YVTvEGTSAVYKL......PIAPLIMGS......HPVDNKGTPTFSPVTNSNCVDLPACF.FLK.....MNCPMPFSLSFIQK.MG.NVTGISVFESAPTLSSLYDLIIKSQLGEE.....EGASPPaSGRSMR...FYAALPGQQ..H..CYFLNGDA...PVQDG.RSLQGALV....S..KIPFRHPAHVPPLLEIIRHQAAYNTLI
  389-  567 (211.82/90.07)	GScvkktYIK.EDTPGLLQF......EVCPLTDSSfsvsfqHPVNESLVCVVMEVIDSRQV...ACK.LYKglsdaLICTDEFITKVVQRcMSiPVTMRAIRRKAETIQA..DTPALSLIAETveimvKKNLPP.TG.SPG...YMGMGPGP..........DGNN...PL..GlPSVGGATP....TggSGPSQH.SHGSDDFSKVTQNPILTSLL
  571-  714 (168.43/68.09)	GS..................vgssptPQAS..AGS......QP.HQTPPPTTSPASNTK..NHPMLMnLLK.....DN.PS.......QD.FA.ALYGSSPLERQNSSGSPR...TDSQ.GQP.....CSAGGP.KGKKKRprhHHTHHPTEDdfHreLFSMDVDAsqnPIFD..VNLPGDGLdtphS..ITPAPSQCGTPP...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     136.39|      28|      30|    1483|    1510|       4
---------------------------------------------------------------------------
 1483- 1508 (39.85/16.59)	....SGST...PKHDRSSPSHSRSPGYTPLN..QD
 1509- 1543 (26.97/ 8.21)	SEseSGSSsvaEKSHQNSPSSDDDQAMRPIQppQD
 1551- 1578 (35.41/13.70)	SL..GEKH...KKHKKEKKKQKDRERDRDRD..RD
 1617- 1642 (34.16/12.89)	....ETSM...SMLGSERPPRPSSPMYMHTE..DD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.45|      12|      29|     940|     952|       5
---------------------------------------------------------------------------
  940-  952 (18.38/11.29)	MGVGSDFkSSEVK
  971-  982 (24.08/11.06)	MGMGGSG.SSEGK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.96|      26|      45|     719|     746|       6
---------------------------------------------------------------------------
  719-  746 (42.52/25.36)	QPGSLQRMVRLSSSDSIGPDINDilSDI
  767-  792 (46.43/22.65)	EGGSLGTPLRDSSSSGQGSTVFD..SDL
---------------------------------------------------------------------------




































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 MDP22220 with Med1 domain of Kingdom Metazoa
Unable to open file!