<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 MDP11726

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWNETFKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMHWKATNAGPLEKILHGSVGYLSPRSGGHLMNLKYYASPSDLLDDKTASPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLVIGSHPADNKLTPSFSSITGANSVDLPACFFLKFPQPIPVSRAFVQKLQSCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSGSPRMEMSSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADATGSPSSDSPTNHFFADGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQTLNTLGVPVLGGDNGETKFKGGSQADTVDFSIITVGGKALGPAELMDHHSGSQSPLLTSGDLGKEKTQKRVKEGNGTSNPGLSGSGLDSKPGKRSRTPSNDGKSKDKPPKRKKADADGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASNSGKMKSSKSEGLSSSKLSSSIYTSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPLSKPNISPSHSRPPGSSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSAGMKSSSGLGSSGSLSQKTPSSNSCTTSSSSFSSSSSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSHSVSSKHSMLGGEFQGKREKSDKDKSKGSTAGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDKDRDKKKSHSIKPESWSKSPISSDQPLSLTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1577
PositionMiddle
OrganismErinaceus europaeus (Western European hedgehog)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Eulipotyphla> Erinaceidae> Erinaceinae> Erinaceus.
Aromaticity0.04
Grand average of hydropathy-0.670
Instability index54.28
Isoelectric point8.90
Molecular weight167699.28
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

>MDP11726
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            10|     502.60|      50|      50|    1082|    1131|       1
---------------------------------------------------------------------------
  982- 1027 (50.73/11.17)	LSG.SGLDSK...PG.KRSR.....TPSNDGKSKDKP.PK..RKK...A..DADGKSP..SHSSSN
 1030- 1080 (48.24/10.21)	FTP.PT..ST...GG.SKSPGS.SGRSQTPPGVATPPiPKitIQI...P..KGTVMVG..KPSSHS
 1082- 1131 (83.28/23.68)	YTS.SGSVSS...SG.SKSHHS.HSSSSSSSSSASNS.GK..MKS...S..KSEGLSS..SKLSSS
 1133- 1171 (49.34/10.63)	YTS.QGS.SG...SG............QSKNSSQS.G.GK..PGS...SpiTKHGLSS..GS.SST
 1173- 1208 (43.95/ 8.56)	MKP.QGKPSSlmnPL.SKPNIS.PSH......................S..RPPG.SS..DKLASP
 1209- 1258 (63.21/15.97)	MKPvPGTPPS...SK.AKSPIS.SGSGGSHMSGTSSS.AG..MKS...S..SGLG.SS..GSLSQK
 1266- 1312 (40.03/ 7.05)	TTS.SSSFSS...S..........SSSMSSSQNQHGS.SK..GKSpsrN..KKPSLTAviDKLKHG
 1375- 1427 (43.62/ 8.44)	KTSeSKNVGS...TGvAKIIISkHDGGSPSIKAKVTL.QK..PGE...S..SGEGLRP..QMASSK
 1429- 1464 (38.86/ 6.61)	Y....GSPLI...SG.STPKHE.RGSPSHSKSPAYTP.QN..L.D...S..ESE............
 1507- 1554 (41.35/ 7.56)	DKD.RDRDKD...RD.KKKSHS.IKPESWSKSPISSD.QP..LSL...T..SNTILST..DRPS..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.03|      16|      22|     876|     896|       2
---------------------------------------------------------------------------
  876-  896 (26.14/22.65)	GFGEEYFdessqSGDNDD..FKG
  904-  921 (23.90/ 9.57)	TLGVPVL.....GGDNGEtkFKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     143.51|      25|      65|     629|     653|       3
---------------------------------------------------------------------------
  541-  563 (24.71/ 7.90)	.P..PAS......SpgY...GMTTGNNPMSGT...TTP
  629-  653 (45.58/23.00)	PP..PVS......S..M...AGNTKNHPMLMNLLKDNP
  674-  699 (25.91/ 8.77)	SPrmEMS......S..G...SNKTKKKKS.SRLPPDKP
  734-  758 (23.98/ 7.38)	TP..HITpapsqcS..T...PPTTYPQPV......PHP
  759-  786 (23.33/ 6.90)	QP..SIQ......R..MvrlSSSDSIGPDVTDILSDIA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     586.93|     161|     165|     112|     273|       4
---------------------------------------------------------------------------
   11-  154 (171.67/91.51)	.............................EKLSKMSSllerLHAKFNQNRPWNE...............TFKLVRQVMEKRvvmsS.GGH....QHLVSCLETLQKalKVTSlPAMT....DRlESIARQNGLGSHLSA..SGTECYITSDMFYV.......eVQLDPA.GQ..LC...DVKVAHHGENPVSCPELVQQLREK..NFDEFSKHL
  155-  311 (242.42/136.24)	KGLV.NLYNLPGDNKLKTK.MYLALQSLeQDLSKMAV....MHWKATNAGPLEK...............ILHGSVGYLSPR....S.GGHLMNLKYYASPSDLLDD..KTAS.PIIL....HE.NNVPRSLGMNASVTI..EGTSAMYKLPIAPL.......vIGSHPAdNK..LT...PSFSSITGANSVDLPACF.........FLKFPQPI
  315-  493 (172.83/92.41)	RAFVqKLQSCTGIPLFETQpTYVPLYEL...ITQFEL....S..KDPDPIPLNHnmrfyaalpgqqhcyFLNKDAPLPDGR....SlQGTLVSKITFQHPGRV..........PLILnlirHQ.VAYNTLIGSCVKRTIlkEDSPGLLQFEVCPLsesrfsvsFQ.HPV.NDslVCvvmDVQDSTH....VSC.KLYKGLSDAliCTDDF....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.97|      20|      20|    1324|    1343|       5
---------------------------------------------------------------------------
 1324- 1343 (35.06/18.40)	MDGQMGVSTNSSHSVSSKHS
 1345- 1364 (31.91/15.94)	LGGEFQGKREKSDKDKSKGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.54|      23|      42|     803|     826|       6
---------------------------------------------------------------------------
  803-  826 (37.37/24.60)	GTPVRDSSSSgH..SQSALFDPDVFQ
  846-  870 (38.17/20.07)	GSPSSDSPTN.HffADGVDFNPDLLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.18|      13|      21|     590|     602|       7
---------------------------------------------------------------------------
  590-  602 (24.17/12.67)	GHGEDFSKVSQNP
  612-  624 (24.01/12.52)	GNGGSTIGSSPTP
---------------------------------------------------------------------------




































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 MDP11726 with Med1 domain of Kingdom Metazoa
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