<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 MDP09508

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMRLDFEIWKVGIGSENPRLQIQFSNHKLWSKITVVSNLELLQDMDMMGMQPKASPAGQTPMNSNNAPGGMHPSISNNSSMMDTSSSGVPPQQQQQGGNQMGEQNSMPLSQMLASAVNNMGGLSTTKSINTTVTPSWRLELMMEKLRQKRNQLKPLQETAKNLRQALMERRCILDPSDKLHLQKCLDTLQQSIKVNSLSSMVERLDMVSRQLGLQFTPGETGQEWFISSDMFYLEVLIDSNGVVRDIKIQHEGKTEQLASSIKSFLFITARSVLVEYQCPDLIKSLEVQDFKDFTAHLQGLISIYNLNADKIIKSKAFIALQALEADLAAMASTYSNQETGERLIMKSLLGHFQPRRGGHPVKLTYYISPYEFFDKDTKTCVPNDIAEIVKRQIGTSATVSIQGSPGINRKLQMSATVNIMRTPDGKNLPRYGTLNATNSTALPACFVINLGKPIPIFKELLTAIQTTTGIENVVTGESQPILNLVTQVVSGNQLDCSEEKGLFVTLPDQHHCYFMTETAGMEGVLISSISFTLASQLPQVIVTLRQQLTFNTLVGSCVRLCSKPVESGSIVFEVSALSHHNLSVSFQHPLDDSLVTLEFDLRDVSHPQCRVHALYSTTPDMIPTLEEHACRVIQRSMSIPVTVRAVIRRWQSMKLKTDIPKPDSLIPAPSNSSSSTNPLLPVGAPSCGLESQQTQQPTFKQCMNYNAPAQTAPIDFISYMSNPIFASLSQNFQSQSQSKNGQGQMTPHSLAASSSVLQGLLDQNNPAKRRKRNKTSTEIQKSPVRQKSPIRQEEPGAAGTAWMTELGLGLEQDGRWNIDITPVNSAAEELKRKFPVKRSVSLDSNVESEDRLPSLSITPVNATAGGTSSTVNSLLASIRPGIEIIPLPNPPIAPTIPNSITVTPILPNSTDIKKIKKRPEDMLEKKKIKKLDIKHVNKLQQQGGKPSVSTMKSVSTLPKTKKLTKSPMDMKKSGDPNKMEKDKSLVIYQPPKTQAATQAVAAALAAAKTQAVPKKSSLDSIINKLKSAAPADIGDSPGKKSEQMSTKDLLKASSSITDIIQKTASKVNEYSVKSSSGLVPGGGLKLTINKSLTAPKFGMELNMKKKTVLKRPLGQKPKSLTPLKDDLKRPLLKKEEMSKITDTRKLYMPSLEGALFKDNPPKFDLKNFQIPKKSKPIEKVETPPPAQSEKNSDLVVESIITTPSTPPQITPPRQPTPQPMVSATPTPTTSSSNPNPLPALTPIGPPPPPIITPSSVPVEPTNNVPRTEEPKIESPVVDIPPPPPPQPLPMAMPQKETIISPESPEPMDTSESIATPQNIPTTPPTTADDAPAAPTEKTSEAETVIPPRSTTPAPPPRSVTPAPPRATTPSPMTATTTTTTNNSVTSAPATVEKVAVEETSTVPPPPPPPASEPSPVVSMTCITVKSPAPNSPMLALRSPLIVQSPHTPFTIDDDLMDEALIGGGPSNNDKAASS
Length1474
PositionMiddle
OrganismOrchesella cincta (Springtail)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Collembola> Entomobryomorpha> Entomobryoidea> Orchesellidae> Orchesellinae> Orchesella.
Aromaticity0.04
Grand average of hydropathy-0.404
Instability index56.13
Isoelectric point9.08
Molecular weight159931.82
Publications
PubMed=27289101

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

>MDP09508
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     268.54|      42|      42|    1170|    1211|       1
---------------------------------------------------------------------------
  856-  908 (39.27/10.52)	SITP..VnataGGTSS...TVNSLlasirpgieiiP.LPNPPIAPTIP......NSIT....VTPILPN
 1170- 1207 (60.86/20.62)	......I....PKKSK...PIEKV...........E.TPPPAQSEKNSDLV..VESII....TTPSTPP
 1208- 1249 (51.48/16.23)	QITP.......PRQPT...PQPMV...........SaTPTPTTSSSNPNPLpaLTPI......GPPPPP
 1250- 1285 (40.64/11.16)	IITP............ssvPVEPT...........N.NVPRTEEPKIESPV..VD.......IPPPPPP
 1286- 1324 (45.56/13.46)	QPLPmaM....PQK.E...TIISP...........E.SPEPMDTS.ESIAT..PQNI.......PTTPP
 1325- 1356 (30.75/ 6.54)	T.....................TA...........D.DAPAAPTEKTSE....AETVIpprsTTPAPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.95|      15|      15|     391|     405|       2
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  391-  405 (26.63/18.35)	RQIGTSATVSIQGSP
  409-  423 (27.32/19.05)	RKLQMSATVNIMRTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.45|      14|      15|    1414|    1427|       4
---------------------------------------------------------------------------
 1414- 1427 (25.84/12.04)	SPVVSM.TCITVKSP
 1431- 1445 (18.61/ 6.49)	SPMLALrSPLIVQSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.56|      28|      31|     152|     182|       5
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  152-  182 (44.41/41.12)	LKPLQETAK.NLRQALMERrciLD.PSDKLHLQ
  185-  214 (38.15/25.19)	LDTLQQSIKvNSLSSMVER...LDmVSRQLGLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.13|      27|      36|      35|      61|       6
---------------------------------------------------------------------------
   35-   61 (48.49/27.31)	VSNLELLQDMDMMGMQPKASPAGQTPM
   74-  100 (48.64/27.42)	ISNNSSMMDTSSSGVPPQQQQQGGNQM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.50|      16|      24|     425|     447|       9
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  425-  440 (28.67/28.22)	GKNLPRYGTL.NATNST
  451-  467 (23.83/ 6.34)	GKPIPIFKELlTAIQTT
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.27|      31|      31|     934|     964|      10
---------------------------------------------------------------------------
  934-  964 (50.99/26.30)	KHVNKLQQQGGKPSVSTMKS..VSTLPKTKKLT
  965-  997 (49.28/25.17)	KSPMDMKKSGDPNKMEKDKSlvIYQPPKTQAAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.97|      29|      31|     701|     731|      11
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  701-  731 (47.30/39.92)	QCMNYNAPAQTAPIDFISymSNPIFAS.LSQN
  735-  764 (45.66/30.20)	QSQSKNGQGQMTPHSLAA..SSSVLQGlLDQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.99|      12|      15|     298|     309|      14
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  298-  309 (20.17/13.54)	QGLISIYNLNAD
  315-  326 (17.82/11.10)	KAFIALQALEAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     185.81|      62|      66|     474|     539|      15
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  474-  539 (91.80/82.67)	VTGEsQPiLNLVTQVVSGNQLdCSE..EKG..LFVTLPDQHHCYFMTETAGMEGVLIsSISFTLAS.QLPQ
  542-  608 (94.01/65.25)	VTLR.QQ.LTFNTLVGSCVRL.CSKpvESGsiVFEVSALSHHNLSVSFQHPLDDSLV.TLEFDLRDvSHPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.32|      21|      29|    1040|    1066|      16
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 1040- 1066 (27.39/31.09)	KSEQMSTKDLLKASssitdiIQK..TASK
 1074- 1096 (30.94/19.25)	SSSGLVPGGGLKLT......INKslTAPK
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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 MDP09508 with Med1 domain of Kingdom Metazoa
Unable to open file!