<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 MDP06147

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceLDIMSKDQQLLMEHLRQKSQHCMSWKDILKSAKMNLMEKRSPLDAEDRVEVAKSYERLLQGLRVASAYELFGRLEDIATKLNLTFVRTPGTANNQSCFITADCFFLEISAEETGSVFLVNVTHEKQTSESVLLRDIINDKRWTELQRHLWGLCSAYIPCKDIDTKNQAFKFMQNLENILHIQSLQRINDNTLPVVEYLRTSDMYFFRRREVGDPPRLYFFCTPLSFWDSETGDFKQLFQNDIDNVMDVSKFKSIIYAELAMENVQGEQFLSISMQSVNALGQFHDIPLSMQIAAVFTLTFPEKLIISMDSVTKIEALTGFKPAFSNQSKILDLILGEVLSSGFSVLRSFVLLEDQLHCYTVDLEGCLTEGVVLEKIYWTNLEVLHKILPILRTEALFKHIFTSFIRNITTTQKQFAQKIFRRDIHVIPSPDLSILECQVKLPREREFFYIVFRLAPINEISVKVGGVVDNADVNLNDVAYEVFSRVWSIPVTIRALVKQLLCLSERNVVVAAAGDGNSGNGDHQNDVVLMQIDCDRSLHLSTDSNCAAHSSVSIPDGNYNMSEYSVCNDDANGVAVADDADDDADAVISVSGIAQSLIIEQQMQKLIVNVDKVLEELLLVCSGRLAGGPNLLDLFKKPKVWRELIPPRRCAGRRGQRSRQQMAPPLAQQCCASAAGQLPAPVAAVAAAAPFGKVGPNLKSRHFSSTSETLTELDELCQLSSSCAEGNGHQSEHASACGDSAVADGGEQKSSIQDTIDSVLGSVRFPGSMAESLINISSCCINNNNNTNNSNPNSNNSNANTSNNNNTNSNNNNNNNNSNNNSMNALASIRKTELGYGQSSAGVAAPMSSSSSSSALAAPMSRSSDSTGDVFDYETRSTTTAGMSIDQGGRSLSSSVCCADDLSIAAASASAPTLDVGFWPPAGGVERLDVRGALLNRGMRRRRRCRKAFANTGDRALDMVLKEMRKAERLVRGASSTRRPRRSRLATATASFTADMREVASKVTLKIRSSSAAALPGVQTAQESSSLAVASSSLSSADQGSSSGGKDEQKKSLKLAANANASGGAATLNTWTQPSSSVFRSLSDAAGESCSSRSSSPPPQLVKPASKRKNSLDVVIGKLMDKVGTSPTKLDPSSDVPDSAGDKQRHLYGFSFSPTASQQQKSGTTAASVSASEFTIHKRGECSTTTTAMATSTGELSDAPEGGIKLVIKKGVIKLKSARHGRGAGAGRFVETGAPSARPRVSSPASAGDRLAASKFELLKQKMQARKIKRQSSTEKSRQRGPRSGALAAVSKTATNRSKLSTVGSSSSGVAELPSVFPGAEGLLFSKSLKGFKIPKIDDNSSKTTTSTTAATVTAAPASTSDSANTTTTVTVSTTTTATVVPAAASAAATMTTTTTTTTNIVSATAAAAVVTSASTVATATTTSANATTTASVAVTPLTVVEKRMADGPPKALVVNDGRASPAGVVSGGGGGILRMKPPLLAVQQVPPPCVGGSSKPLIRRSRPVPLPLPPRSLVATGPHFAGPPAVELALPTGPAVPRYVRRTLLPNPPLQTASSPRPPPPQPLLELNKHHQQQMLVHSTTQQRPTKQELLNPMTNQMSPKSASPDPTGLVIDDNLNTTAAISSPQKNAEEVDVLSPGLRIAVDEGDETKGPTTHSSSTT
Length1661
PositionMiddle
OrganismTrichinella patagoniensis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.266
Instability index48.09
Isoelectric point8.78
Molecular weight177441.43
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

>MDP06147
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     105.77|      20|      20|    1374|    1393|       1
---------------------------------------------------------------------------
 1346- 1367 (28.27/12.63)	T.....STTAATVTaaPASTSDSANTT
 1368- 1392 (29.57/13.57)	TtvtvsTTTTATVV..PAAASAAATMT
 1393- 1412 (23.54/ 9.22)	T....tTTTTTNIV..SATA.AAAVVT
 1416- 1430 (24.38/ 9.83)	T.....VATATT.......TSANATTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.24|      18|      26|     782|     799|       2
---------------------------------------------------------------------------
  782-  799 (37.74/23.58)	NNNNNTNNSNPNSNNSNA
  810-  827 (36.50/22.55)	NNNNNNNNSNNNSMNALA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     124.24|      24|      24|    1466|    1489|       3
---------------------------------------------------------------------------
 1466- 1489 (44.10/28.66)	VSGGGGGILRM.......KPPL.LAVQQVP.PP
 1491- 1511 (29.94/16.43)	VGGSSKPLIRR.......SRPV.....PLPlPP
 1512- 1532 (28.13/14.86)	RSLVATGPHFA.......GPP...AVELAL.P.
 1534- 1561 (22.07/ 9.62)	....GPAVPRYvrrtllpNPPLqTASSPRP.PP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.23|      15|      15|     665|     679|       4
---------------------------------------------------------------------------
  665-  679 (28.93/16.44)	PLAQQCCASAAGQL.P
  681-  696 (17.30/ 6.67)	PVAAVAAAAPFGKVgP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.39|      29|      41|     926|     962|       5
---------------------------------------------------------------------------
  926-  959 (41.72/48.25)	ERLdVRGAllnRGMRRRRRCRKAFAnTGDRALDM
  968-  996 (52.67/30.43)	ERL.VRGA...SSTRRPRRSRLATA.TASFTADM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.16|      13|      16|    1033|    1045|       6
---------------------------------------------------------------------------
 1033- 1045 (22.56/10.09)	SLSSADQGSSSGG
 1052- 1064 (19.95/ 7.99)	SLKLAANANASGG
 1081- 1093 (21.64/ 9.35)	SLSDAAGESCSSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      30.71|       9|      16|     721|     730|       9
---------------------------------------------------------------------------
  721-  730 (14.28/12.62)	SSCAEGnGHQ
  740-  748 (16.43/ 8.41)	SAVADG.GEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.72|      11|      24|    1164|    1174|      10
---------------------------------------------------------------------------
 1164- 1174 (17.91/11.33)	TTAASVSASEF
 1186- 1196 (18.81/12.38)	TTAMATSTGEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.44|      12|      24|       2|      13|      11
---------------------------------------------------------------------------
    2-   13 (21.10/16.07)	DIMSKDQQLLME
   27-   38 (20.34/15.19)	DILKSAKMNLME
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.05|      13|      26|     612|     624|      12
---------------------------------------------------------------------------
  612-  624 (22.90/14.67)	KVLEELL..LVCSGR
  639-  653 (21.15/12.97)	KVWRELIppRRCAGR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.07|      15|      18|     203|     218|      13
---------------------------------------------------------------------------
  203-  218 (25.57/23.17)	MYFFrRREVGDPPRLY
  224-  238 (28.50/19.84)	LSFW.DSETGDFKQLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     148.92|      48|      57|    1208|    1258|      14
---------------------------------------------------------------------------
 1208- 1256 (75.43/47.39)	IKKGVIKLKSARHGRGAGAGRFVETGApSARPRVSSPASAGDRLA..ASKF
 1268- 1317 (73.49/36.44)	IKRQSSTEKSRQRGPRSGALAAVSKTA.TNRSKLSTVGSSSSGVAelPSVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.59|      20|     285|     117|     136|      15
---------------------------------------------------------------------------
  117-  136 (33.57/23.91)	FLVNVTH.EKQTSESVLLRDI
  404-  424 (31.02/21.51)	FIRNITTtQKQFAQKIFRRDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.54|      13|      26|    1098|    1111|      16
---------------------------------------------------------------------------
 1098- 1111 (19.20/12.82)	PPQLvKPASKRKNS
 1127- 1139 (22.34/10.59)	PTKL.DPSSDVPDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.54|      30|      43|     841|     870|      17
---------------------------------------------------------------------------
  841-  870 (50.56/26.51)	AGVAAPMSSSSSSSAL..AAPMS....RSSDSTGDV
  881-  916 (39.98/19.29)	AGMSIDQGGRSLSSSVccADDLSiaaaSASAPTLDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.82|      17|      43|     337|     353|      18
---------------------------------------------------------------------------
  337-  353 (24.07/15.43)	EVLSSGFSVLRSFVLLE
  365-  381 (25.22/16.56)	GCLTEGVVLEKIYWTNL
  382-  398 (24.53/15.88)	EVLHKILPILRTEALFK
---------------------------------------------------------------------------




































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 MDP06147 with Med1 domain of Kingdom Metazoa
Unable to open file!