<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 MDP12787

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNATPLDKILHGSVGYLTPRSGGHLMNIKYYASPSDLLDDKTASPIILHEKNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSVTSANSVDLPACFFLKFPKPIPVSKTFVQKLQNCTGIPLFETPPTYVPLYELITQFELSKDPDPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGQSLQGTLVSKITFQHPGRVPLILNMIRHQVAYNTLIGSCVKRTVLKEDTPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMATGNNPMSGTTTPTNTFPGGPITTLFNMSMSIRDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKTKKKKSSRVPPDKSKHQTEDDFQRELFSMDVDSQNPMFDVSMTADALDTPHITPAPSQCSTPPTTYPQTVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTNDDCPPIGTPVRDSSSSGHSQSALFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKSSGQADTVDFSIISVAGKALGPADIMEHHSGSQSPLMATGELGKEKTQKRVKEGNGTGGGSGSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSHSQYSSSGSVSSSGSKSHHSHSSSSSSSSSASTSGKMKSSKSEGSSSSKLSGSMYSSQGSSGSSQSKNSSQTGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPCLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSSGPHMSGTSSSSGIKSSSGSGSSGSLSQKTPPASNSCTPSSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDSQMGVSTNSSSHPMSSKHNMSGGEFQSKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQIASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNVDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDRDRDRDKDRDKKKSHSIKPENWSKSPISSDQTLSMTNNPILSADRPSRLSPDFMMGEEDDDLMDVALIGN
Length1531
PositionMiddle
OrganismMesocricetus auratus (Golden hamster)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Cricetidae> Cricetinae> Mesocricetus.
Aromaticity0.04
Grand average of hydropathy-0.674
Instability index53.15
Isoelectric point8.81
Molecular weight162378.32
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

>MDP12787
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            11|     888.32|      99|     100|    1059|    1157|       1
---------------------------------------------------------------------------
  547-  603 (46.29/ 6.43)	......................SKV..........................SQNPIL........TS......LLQ..ITG..NGGSTIG..SSPT...PPHH...TPPPVSSMAGN.....TK.NHP..........................MLMN..LLKDN...........................
  605-  701 (52.53/ 8.31)	.....................AQDFS.....................TLY...GSS.........PL......ERQ..NSS....SGSP...........RME...MCSGSNKTKKKkssrvPP.DKSKhqteddfqrelfsmdvdsqnpmfdvSMTADALDTPHI...TPAP.S...QcstPP.......T
  713-  815 (70.65/13.78)	SIQRMVRLSSSD..SIGP..DVTDILsdiaeeasklpstnddcppiGTPVRDSSSSG........HS......QSAlfDSDvfQTNN...........................NEN.....PY.TDPA.........................DLIADAAGSPSS..dSPTN.H...F...FPDGVD....
  816-  909 (55.25/ 9.14)	........................FN....................PDLLNSQSQSGfgeeyfdeSS......QSG..DND..DFKG.FA..SQAL...NTLGvpmLGGDNGETKFK.....SS.GQAD..................tvdfsiiSVAGKALGPADI...MEHH.S..........GSQSplM
  910-  981 (68.15/13.03)	ATGELGKEKTQKrvKEGN..GT........................G......GGSG........SG......PGL..DS.......KPG..K..............RSRTPSNDGK.....SK.DKP..............................PKRKKADTegkSPSH.SssnR...P.........
  983- 1055 (75.73/15.31)	........TPPT..STG.............................GS..KSPGSSG......................RS..QTP..PGvaTPPI...PKIT...IQIPKGTVMV.........GKPS.........................H..SQYSSSGSV...SSSG.S...K.shHSHSSSS..S
 1059- 1157 (176.10/45.58)	SASTSGKMKSSK..SEGS..SSSKLS....................GSMYSSQGSSG........SS......QSK..NSS..QTGGKPG..SSPI...TKHG...LSSGSSSTKMK.....PQ.GKPS.........................SLMNPCLSKPNI...SPSH.S...R...PPGGSDK..L
 1161- 1224 (86.29/18.49)	MKPVPGTPPSSK..AKSP..IS.............................S.GSSG........PH......MSG..TSS..SSGIKSS..SGS.......G....SSGSLSQK..........TPPA.........................S..NSC.........TPSS.S...S.............
 1226- 1296 (66.43/12.51)	................SS..SGS........................SMSSSQNQHG........SS......KGK..SPS..R.NKKPS..LTAVidkLKHG..vVTSG............PG.GE..............................DPMDSQMGV...STNS.S...S...HPMSSKH...
 1298- 1388 (89.59/19.49)	...MSGGEFQSK..REKSdkDKSKVS....................TSGGSVDSSKK........TS......ESK..NVG..STG..VA..KIII...SKH.....DGGSPSIKAK.....VTlQKPG.........................ESSGEGL.RPQI...ASSK.N...Y......GSPL..I
 1389- 1492 (101.31/23.03)	SGSTPKHERGSP..SH.S..KSPAYT....................PQNVDSESESG........SSiaeksyQNS..PSS..DDGIRPL..PEYS...TEKH...KKHKKEKKKVK.....DR.DRDR.........................DKDRDKKKSHSI...KPENwS...K...SPISSDQ...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.83|      31|      48|     103|     134|       2
---------------------------------------------------------------------------
  103-  134 (49.82/34.91)	KHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQD
  153-  185 (52.01/32.06)	KILHGSVG.YLTPrsGGHLMNIKYYASPSDLLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     300.52|      84|     164|     189|     276|       3
---------------------------------------------------------------------------
  189-  275 (142.24/92.03)	SPIIL.HEKNVPRSLGM...............NASVTIEGTSAMYKLPIAPL......IMGSHPVDNKWTPSFSSVTSANSVdlpACFFL.K.FPKPIPVSKT..FVQK.L...QNC
  277-  324 (44.77/33.38)	.............................................GIP..........LFETPPT...YVPLYELIT.........QFELsK.DPDPLPLNHNmrFYAA.LpgqQHC
  345-  452 (113.51/65.04)	SKITFqHPGRVPLILNMirhqvayntligscvKRTVLKEDTPGLLQFEVCPLsesrfsVSFQHPVNDSLVCVVMDVQDSTHV...SCKLY.KgLSDALICTDD..FIAKvV...QRC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.45|      17|      20|     492|     509|       4
---------------------------------------------------------------------------
  492-  509 (28.30/18.80)	PPASSPGYGMATGNNpMS
  514-  530 (31.14/15.82)	PTNTFPGGPITTLFN.MS
---------------------------------------------------------------------------




































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 MDP12787 with Med1 domain of Kingdom Metazoa
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