<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 MDP00832

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMDKTKEWQMELLMEKLRSKAGQFKSFVESAKALRMSILEKRYPVDNVERNQLQKCLDILQHSIKVTSLQGMVERLESVTRQLGLKFSPGGSPLDWFISSDMFYLEVMLESTGGVKDVRIHHEGKVEQQSCEELVSCLSRGDFADFTAQLEGLASIYQLNAEKKVKCKAFSALQSLEADLGTLATLQSFIKEPFNLVHKSPVGILEKRRGGHAMKLTYLVPPYDLLDQQTNSSLSLSVEEVTSRNLGYSVMVCLEGSAAHKLQTTALISVNRSPSGKSTPLYASLSAANSATLPACFVLRLNNPMPMCLNLVRRIQQVTEMECGDLSTPHPLLSLVTQHASAGQLDCANNRGLFVTLPDQQHCFFMTESKNLEGILVSNIPFLHPAHVPQILMLLRQQALFNVLVSSCIRPASKHADLESVIMFEVTALSWQHLSISFEHPLEETMTTAELDLADISNIKCKVYGAGNGENGCTPEHASKVLQRCWSIPVTMRSLIRLWQSHNLRSNGLTAGGNLSLPPGSDPGRGHGGSMTPDFDVSRVKAEPDGSSLPHSQSLSGSGSRQGFGPDMSDTGVGFQSPGNPIESSVSNTFQFGALLSSQGSVGKGPVLLNMLSEQTPNTKKQRKRNNKDGMWRSPKRKQSEECEIVLESSSSDSTPLGTPTSRDAPMETILDCEEEKTGSDFGEEEIMPVEEVEEMIVRKPKKEKKTSPPTIILDLAESKNLVAPSVSITPITSSSSSFNSVLTGMGLERRPGIEIIPIVSTPATSLHSSITITPISSKVIAADDRNYRDRKSGKSRTEDKMRPDKKRNKRKREDSPSGCGGSSVAMGPPDKLPPKQDPLSKPVSVSIKPTESPPMTSVRPSSPASALRKVTSSPTHVNLSLTKSSSSKPSSSHQSPKHSPGYTTSSPKHHGTSSPKHQSSGGSGKPSMSALKSAASSPSTAGKSGSDVPKVKSSSSKDKDRKVSSSYSGASSGSGSSPKLKSSSVKLKQLDITSGSGDGGTGPQSGAGTPPLVTIDGNKSSAVPQVRNRKGSLSAVIDKLKSAQHQGPEPGEVMKEGRGSGTNPSSKIPGDTSGSIISSSKNPGEYMVKSSSEGIKITINKTRTKDSKSGVVKTSSSSSSSTGSGSPKTHTGLKPGVNSGPASKKPHQMLQQKSTSGNSGSSGISSSSSKAGSGSSSGNPSSKIPSTIKSTSSPVSGILSKSASKSSGSPKMSSLADANRRDNKPRTLKTGSDREKPVFSKGPDARKSSPIGLRDELEGERALKLVTAHAKIEPSLPPQLIVEGMIKSLDTKFQIPKLSARSSNLNEGDSKKQSSDKTSIGGTESSNRMDSGAKPIDLVGKVDGSNTSTKFPPLSKTDDMKGSKIPALASVTPALAISSLTTPTLKPPPTTAFPSVTSKLQDINLDTCPQISAPTAAPIVASMSSSSSEPTSGETLEVSRMKTDLPRSGQSSGNNAKEETTIQVIGKLENPVKSFSASNNNNDPSVLSTLHLSKTVDSSQTKFSSSSSQKQAEDSKKLVNLSDIPNKSTGLNKMTPAPTTSQEAAEILLDMSASSSLQNKPLVVEQQAGKLATVPERAVAVSAPSRRNTPPPPLPPPQPSVQVHILQSPAAAASTTASPVVITSPHSASPCSIDDELMDEALVGMGK
Length1647
PositionMiddle
OrganismZootermopsis nevadensis (Dampwood termite)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Polyneoptera> Dictyoptera> Blattodea> Blattoidea> Termitoidae> Termopsidae> Zootermopsis.
Aromaticity0.03
Grand average of hydropathy-0.503
Instability index57.96
Isoelectric point9.31
Molecular weight174360.88
Publications
PubMed=24845553

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

>MDP00832
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.45|      25|      26|     933|     957|       1
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  888-  913 (30.39/ 8.30)	KPSSSHQSPKHSPGYTTSSPK.........hHGTS
  937-  971 (35.06/10.92)	SPSTAGKSGSDVPKVKSSSSKdkdrkvsssySGAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     123.15|      24|      24|    1352|    1375|       2
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 1277- 1305 (28.68/13.20)	PPqlivegMIKSLDTK.FQIPKLSARSSNL
 1352- 1375 (40.51/22.24)	PP......LSKTDDMKGSKIPALASVTPAL
 1378- 1400 (34.13/17.36)	SS......LT.TPTLKPPPTTAFPSVTSKL
 1401- 1417 (19.83/ 6.44)	Q............DINLDTCPQISAPTAA.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     250.39|      55|      56|    1006|    1060|       3
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  853-  887 (29.23/ 6.22)	....P.PMTS..V..RPSSPASA.LRKVTSSPTHVnlsLTKSSSS..............................
 1006- 1060 (86.91/33.95)	GAGTP.PLVT..IDGNKSSAVPQ.VRNRKGSLSAV...IDKLKSAQ..........HQGPEPG...EVMKEGRGS
 1096- 1143 (40.34/11.56)	.......KIT..I..NKT.......RT.KDSKSGV...VKTSSSSSsstgsgspktHTGLKPG.....VNSGPAS
 1178- 1222 (49.40/15.92)	..............GNPSSKIPStIKSTSSPVSGI...LSKSASKS..........SGSPKMS...SLADANRRD
 1231- 1284 (44.51/13.57)	GSDREkPVFSkgPDARKSSPI.G.LRDELEGERAL.....KLVTA...........HAKIEPSlppQLIVEG...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.06|      27|      27|     110|     136|       4
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  110-  136 (48.16/25.99)	STGGVKDVRIHHEG..KVEQQSCEELVSC
  138-  166 (41.90/21.83)	SRGDFADFTAQLEGlaSIYQLNAEKKVKC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.92|      23|      27|    1452|    1478|       5
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 1452- 1478 (32.73/29.30)	SGNNAKEETTIQvigkLENPVKS....FSAS
 1480- 1506 (33.20/19.28)	NNNDPSVLSTLH....LSKTVDSsqtkFSSS
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.53|      26|      27|     724|     750|       6
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   62-   87 (38.18/16.32)	SIKVTSLQGMVERLESVTRQLGLKFS
  725-  750 (42.35/24.72)	SVSITPITSSSSSFNSVLTGMGLERR
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.74|      24|      27|     300|     324|       7
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  300-  324 (39.74/32.61)	LNNPMPMcLNLVRRIQQVTEMECGD
  325-  348 (42.00/28.02)	LSTPHPL.LSLVTQHASAGQLDCAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.91|      25|      27|     783|     809|       8
---------------------------------------------------------------------------
  521-  538 (28.09/ 7.22)	......DPGRGHGGS...M.TPDFDVSR
  783-  809 (35.06/15.44)	DDRNyrDRKSGKSRTEDKM.RPDKKRNK
  810-  835 (44.77/16.04)	RKRE..DSPSGCGGSSVAMgPPDKLPPK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.98|      25|      27|     563|     588|       9
---------------------------------------------------------------------------
  563-  588 (42.90/23.19)	FGPDMSDTG.VGfQSP..GNPIESSVSNT
  591-  618 (35.08/14.26)	FGALLSSQGsVG.KGPvlLNMLSEQTPNT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.31|      23|      27|     371|     393|      10
---------------------------------------------------------------------------
  371-  393 (40.98/28.21)	LEGILVSNI..PFLHPAHVPQILML
  399-  423 (32.70/20.74)	LFNVLVSSCirPASKHADLESVIMF
  428-  440 (16.63/ 6.24)	LSWQHLS.I..SFEHP.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.69|      26|      28|     170|     195|      12
---------------------------------------------------------------------------
  170-  195 (41.66/27.01)	SALQSLEADLGTLATLQSFIKEPFNL
  199-  224 (46.02/30.65)	SPVGILEKRRGGHAMKLTYLVPPYDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.44|      10|      28|     641|     652|      13
---------------------------------------------------------------------------
  641-  652 (13.30/11.60)	ECEivLESSSSD
  671-  680 (19.14/ 9.73)	DCE..EEKTGSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.83|      28|      60|    1536|    1564|      15
---------------------------------------------------------------------------
 1536- 1564 (42.04/28.69)	PAPTTSQEaAEILLDMSASSSLQNKPLVV
 1595- 1622 (48.79/29.35)	PPPQPSVQ.VHILQSPAAAASTTASPVVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.56|      15|     341|     973|     999|      16
---------------------------------------------------------------------------
  973-  990 (19.94/ 6.08)	GSGSSPKLKSSSvklKQL
 1322- 1336 (25.62/14.69)	GTESSNRMDSGA...KPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.06|      21|      30|     235|     258|      17
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  235-  258 (30.43/21.30)	LSVEEVTSrnlGYSVMVCLEGSAA
  267-  287 (35.63/17.61)	ISVNRSPS...GKSTPLYASLSAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.00|      13|      61|    1081|    1094|      20
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 1062- 1074 (23.06/12.79)	TNPSS.KIPGDTSG
 1081- 1094 (17.94/14.62)	KNPGEyMVKSSSEG
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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 MDP00832 with Med1 domain of Kingdom Metazoa
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