<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 MDP06361

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceLDIMSKDLQLLMEHLRQKSQHCMSWKDILKSAKVNLMEKRSPLDAQDRVEVAKSYERLLQGLRVASSYELFGRLEDIATKMKCEFFACFFSLTFVRTPGSANSQSCFITADCFFLEICAEETGSVFLVNVTHEKQTSESVLLRDIINDKRWTELQRHLWGLYSAYIQCKDIDTKNQAFKFMQNLENILHIQSLQRINDNTLPVVEYLRTSDMYFFRRREVGDPPRLYFFCTPLSFWDSETGDFKQLFQNEVDNVMDVSKFKSVIYAELAMENVQGEQFLSISMQSVNTLGQFNDVPLSMQIAAVFTLTFPEKLIISMDSVTKIEALTGFKPAFNNQSKILDLILDEILPSGFSVLRSFVLLEDQLHYYTVDLEGCLTEGVVLEKIFWTNLEMLHKILPILRTEALFKHMFTSFIRNIATTQQQFAQKMFRRDIHVIPSPDLSILECQVKLPQEREFFYIVFRLAPINEISVKVAGVDNADENLNDVAYKVFSRVWSIPVTIRALLKQLLRLSERNVVVAAAGDGNSGNGDQNAVVPMQIDCDRSLHLSSDSNCAAHSSVSIPDGNYNMSEYSVCNDDANDFAVAVADDDDDADADADAVISVSGIAQSLTIEQQMQKLIVNVDKVLEELLLVCSGRLAGGPNLLDLFKKPKVWRELIPPRRCAGRRGQRSRQQMAPSLAQQCCASAAGQLPAPVAAAAAAAPFGKVGPNLKSRHFSSTSETLTELDELCQLSSSCAEGNGHQGQSEPVAASGDAAVADGEQKSSIQDTIDSVLGSVRFPGSMAESLINISSCCINNNNNTNNSNPNNNNSNTNTSNNNNNNNMNALASIRKIELGYGQSSATVAAPMASSSPALAPLPRSSDSTGDVFDYETRSPTTAGAVDQGGRSLSSTVCCADDMSIRAASYADAGAAAAAASASAPTLDVGFWPPAGGVERLDVRGALLNRGMRRRRRCRKAFANTGDRALDMVLKEMRKAERLVRGAGGTRRPRRSRLATATASFTADMREVASKVTLKIRSSSAALPGQGAQESSLSLASSSLSPADQGSSSGAPGGKDEQRKSFKLAANAGGAVGAAAALPSQLQPTAAAALSTWTQPPSSVFRSLSHAADEPCSSQSSAAPPQLVKPASKRKNSLDVVIGKLMDKVGTSPTKPDPPSDVPDSAGDKQRHFYGFCFSPTASQQQKSGTVAAAGSASEFTIQRRGECSTTAAVPPSASDLSDAPEGGIKLVIKKSVIKLKSARHGRGAGAGHFAETGAPSGRPRVSSPSSVGERLAASKFELLKQKMQARKIKRQSSTEKSRQRGPRSGALAAVSKTASNKSKLSTVGPSPGVAELPSVFPGAEGLLFSKSLKGFKIPKIEDNSSKTTTTTTATTATVVTAAASASASAITTTAVAASTATTATVATAAASAAATMTTTTTTTIASATASAAVVTNASTVATATTTSANATTTANVAVTPSTVVEKRLADGPPMALVVNDGRASPAGVVSGGGGGGILRMKPPLLAVQQVPPPCGGGSSKPLIRRSRPVPLPLPPRSLVATGAHFPAPPAVELALPTGPAVPRYVRRTLLPNPPLQTASSARPPSQPLLELNKHHQQQMLVQQPQQRPTKQELLNPMTNQTSPKSASPEPTGLVIDDNLNTTAAITSPQKSAEEVDVLSPGLRIAVDEGDETKGATTHSSSTT
Length1679
PositionMiddle
OrganismTrichinella papuae
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.232
Instability index49.64
Isoelectric point8.61
Molecular weight178983.48
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

>MDP06361
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.23|      22|      22|    1397|    1418|       1
---------------------------------------------------------------------------
 1371- 1391 (28.64/14.88)	.TATVVTAAASASASA.ITTTAV
 1397- 1418 (38.68/23.39)	TTATVATAAASAAATM.TTTTTT
 1421- 1443 (24.92/11.73)	ASATASAAVVTNASTVaTATTTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.55|      16|      16|     795|     810|       2
---------------------------------------------------------------------------
  795-  810 (31.13/18.48)	NNNNNTNNSNPNNNNS
  813-  828 (29.42/17.09)	NTSNNNNNNNMNALAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.16|      16|      22|    1525|    1545|       4
---------------------------------------------------------------------------
 1525- 1541 (24.48/10.73)	VpLPLPPRS....LVATGAHF
 1584- 1603 (17.68/11.66)	L.LELNKHHqqqmLVQQPQQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.97|      20|      22|      70|      90|       5
---------------------------------------------------------------------------
   70-   90 (35.29/25.55)	L.FGRLEDIATKMKCeFFA..CFF
   92-  114 (30.68/17.04)	LtFVRTPGSANSQSC.FITadCFF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.33|      22|      24|    1604|    1625|       7
---------------------------------------------------------------------------
 1604- 1625 (39.69/26.82)	PTK...QELLNPMTNQTSPKSASPE
 1626- 1650 (32.64/20.47)	PTGlviDDNLNTTAAITSPQKSAEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.90|      14|      16|    1013|    1026|       8
---------------------------------------------------------------------------
 1013- 1026 (24.83/13.28)	LKIRSSSAALPGQG
 1032- 1045 (22.06/10.77)	LSLASSSLSPADQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.65|      13|      16|     402|     417|       9
---------------------------------------------------------------------------
  402-  417 (19.05/19.96)	TEALF.KHMFTsfiRNI
  420-  433 (20.60/11.60)	TQQQFaQKMFR...RDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.40|      22|      22|    1289|    1310|      11
---------------------------------------------------------------------------
 1104- 1123 (26.12/ 8.23)	SHAADEPCSSQ...SSA..APPQlV
 1289- 1310 (33.65/12.45)	KRQSSTEKSRQRGPRSG..ALAA.V
 1312- 1335 (32.63/11.88)	KTASNKSKLSTVGPSPGvaELPS.V
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.28|      16|      24|     624|     639|      12
---------------------------------------------------------------------------
  624-  639 (26.04/12.97)	KVLEELLLV..CSGRLAG
  651-  667 (24.55/11.80)	KVWRELIPPrrCAGR.RG
  673-  688 (26.69/13.47)	QMAPSLAQQ..CCASAAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.78|      20|      23|     206|     227|      13
---------------------------------------------------------------------------
  206-  227 (29.26/31.08)	YLRTSdMYFFrRREVGDPPRLY
  228-  247 (38.53/27.82)	FFCTP.LSFW.DSETGDFKQLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.93|      17|      22|    1542|    1558|      14
---------------------------------------------------------------------------
  691-  708 (26.42/13.73)	PAPvAAAAAAAPFGKVGP
 1542- 1558 (32.51/19.29)	PAP.PAVELALPTGPAVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.74|      18|      68|     981|     998|      15
---------------------------------------------------------------------------
  940-  961 (26.47/14.17)	GAllnRGMRRRRRCRKAFAnTG
  981-  998 (34.27/20.62)	GA...GGTRRPRRSRLATA.TA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.33|      14|      16|     732|     745|      17
---------------------------------------------------------------------------
  732-  745 (26.24/17.23)	SSSCAEGNGHQGQS
  751-  764 (23.08/14.11)	SGDAAVADGEQKSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.76|      13|      16|    1067|    1079|      18
---------------------------------------------------------------------------
 1067- 1079 (21.10/10.50)	AGGAVGAAAALPS
 1085- 1097 (23.66/12.77)	AAAALSTWTQPPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.58|      18|      27|    1456|    1474|      19
---------------------------------------------------------------------------
 1456- 1474 (28.54/18.90)	PSTVVEKRLADG.....PPMaLVV
 1481- 1503 (28.03/13.92)	PAGVVSGGGGGGilrmkPPL.LAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.56|      44|     318|     561|     611|      24
---------------------------------------------------------------------------
  561-  611 (61.35/54.90)	IPDGNYNMSEYSVCNDDANDFAVAVAddddDADAdADAVISVSgiAQSLTI
  881-  924 (75.21/44.54)	VDQGGRSLSSTVCCADDMSIRAASYA....DAGA.AAAAASAS..APTLDV
---------------------------------------------------------------------------




































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 MDP06361 with Med1 domain of Kingdom Metazoa
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