<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 MDP06210

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceLDIMSKDQQLLMEHLRQKSQHCMSWKDILKSAKMNLMEKRSPLDAEDRVEVAKSYERLLQGLRVASAYELFGRLEDIATKMNLTFVRTPGTANNQSCFITADCFFLEISAEETGSVFLVNVTHEKQTSESVLLRDIINDKRWTELQRHLWGLCSAYIPCKDIDTKNQAFKFMQNLENILHIQSLQRINENTLPVVEYLRTSDMYFFRRREVGDPPRLYFFCTPLSFWDSETGDFKQLFQNDIDNVMDVSKFKSIIYAELAMENVQGEQFLSISMQSVNALGQFHDIPLSMQIAAVFTLTFPEKLIISMDSVTKIEALTGFKPAFSNQSKILDLILGEILSSGFSVLRSFVLLEDQLHCYTVDLEGCLTEGVVLEKIYWTNLEVLHKILPILRTEALFKHIFTSFIRNITTTQKQFAQKIFRRDIHVISSPDLSILECQVKLPRERGFFYIVFRLAPINEISVKVGGVVDNADVNLNDVAYEVFSRVWSIPVTIRALVKQLLCLSERNVVVAAAGDGNSDNGDHQNDVVLMQIDCDRSLHLSTDSNCAAHSSVSIPDGNYNMSEYSVCNDDANGVAVADDADDDADAVISVSGIAQSLIIEQQMQKLIVNVDKVLEELLLVCSGRLAGGPNLLDLFKKPKVWRELIPPRRCAGRRGQRSRQQMAPPLAQQCCASAAGQLPAPVAAVAAAAPFGKVGPNLKSRHFSSTSETLTELDELCQLSSSCAEGNGHQSEHASACGDSAVADGGEQKSSIQDTIDSVLGSVRFPGSMAESLINISSCCINNNNNTNNSNPNSNNSNANTSNNNNTNSNNNNNSMNALASIRKIELGYGQSSAGVAAPMSSSSSPALAAPMSRSSDSTGDVFDCETRSTATAGMSIDQGGRSLSSSVCCADDLSIAAASASTPTLDVGFWPPAGGVERLDVRGALLNRGMRRRRRCRKAFANTGDRALDMVLKEMRKAERLVRGASSTRRPRRSRLATATASFTADMREVASKVTLKIRSSSAAALPGVQTAQESSSLAVASSSLSSADQGSSSGGKDEQKKSLKLAANANASGGAGAATLNTWTQPSSSVFRSLSDATGESCSSRSSSPPPQLVKPASKRKNSLDVVIGKLMDKVGTSPTKLDPSSDVPDSAGDKQRHLYGFCFSPTASQQQKSGTTAASVSASEFTIHKRGECSTTAMATSTGELSDAPEGGIKLVIKKGVIKLKSARHGRGAGAGRFVETGAPSARPRVSSPASAGDRLAASKFELLKQKMQARKIKRQSSTEKSRQRDPRSGALAAASKTAANRSKLSTVGSSSSGVAELPSVFPGAEGLLFSKSLKGFKIPKIDDNSSKTTTTTTAATVTAAPASTSDSANTTTTVTVSTTTTATVVPAAASAAATMTTTNIVSATAAAAVVTSASTVATGTTTSANATTTASVAVTPLTVVEKRMADGPPMALVVNDGRASPAGVVSGGGGGILRMKPPLLAVQQVPPPCVGGSSKPLIRRSRPVPLPLPPRSLVATGPHFAGPPAVELALPTGPAVPRYVRRTLLPNPPLQTASSPRPPPPQPLLELNKHHQQQMLVHSTTQQRPTKQELLNPMTNQMSPKSASPDPTGLVIDDNLNTTAAISSPQKNAEEVDVLSPGLRIAVDEGDETKGPTTHSSSTT
Length1648
PositionMiddle
OrganismTrichinella britovi (Parasitic roundworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.245
Instability index49.04
Isoelectric point8.68
Molecular weight176036.22
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

>MDP06210
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.22|      16|      19|     783|     799|       1
---------------------------------------------------------------------------
  783-  799 (28.35/19.81)	NNNNTnNSNPNSNNSNA
  803-  818 (32.87/18.40)	NNNNT.NSNNNNNSMNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.39|      29|      43|     918|     954|       2
---------------------------------------------------------------------------
  918-  951 (41.72/42.51)	ERLdVRGAllnRGMRRRRRCRKAFAnTGDRALDM
  960-  988 (52.67/26.80)	ERL.VRGA...SSTRRPRRSRLATA.TASFTADM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.31|      24|      24|    1333|    1356|       3
---------------------------------------------------------------------------
 1333- 1356 (40.42/20.32)	SSKTT...TTTTAATV.....TAAPASTSDSA
 1357- 1381 (29.31/12.74)	NTTTTvtvSTTTTATV.....V..PAAASAAA
 1392- 1419 (22.58/ 8.15)	TAAAA...VVTSASTVatgttTSANATTTAS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     140.59|      24|      24|    1453|    1476|       4
---------------------------------------------------------------------------
 1453- 1476 (43.26/24.25)	VSGGGGGILRMKPPL.LAVQQVP.P..P
 1478- 1498 (29.29/13.70)	VGGSSKPLIRRSRPV.....PLPlP..P
 1499- 1522 (30.24/14.41)	RSLVATGPHFAGPP...AVELAL.PtgP
 1524- 1548 (37.81/20.13)	VPRYVRRTLLPNPPLqTASSPRP.P..P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.17|      24|      24|     999|    1022|       5
---------------------------------------------------------------------------
  999- 1019 (26.90/ 9.70)	......IRSSSAAALPGVQT.AQESSSL
 1020- 1045 (25.58/ 8.86)	AVAsssLSSADQGSSSGGKD.EQK.KSL
 1046- 1072 (24.69/ 8.30)	KLA.anANASGGAGAATLNTwTQPSSSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.68|      36|      66|     149|     187|       6
---------------------------------------------------------------------------
  149-  187 (60.34/59.91)	LWGLCSayiPCKDIDTKNQAFK..FMQNLENILHIQSLQRI
  217-  254 (61.34/50.27)	LYFFCT...PLSFWDSETGDFKqlFQNDIDNVMDVSKFKSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     151.00|      35|      66|     484|     519|       7
---------------------------------------------------------------------------
  484-  519 (49.78/35.66)	SRVwSIPVTIRALVKQLLCLSERN.VVVAAAGDGNSD
  550-  585 (55.52/33.83)	SSV.SIPDGNYNMSEYSVCNDDANgVAVADDADDDAD
  876-  907 (45.70/26.13)	....SIDQGGRSLSSSVCCADDLS.IAAASASTPTLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.84|      20|      22|    1561|    1580|       8
---------------------------------------------------------------------------
 1561- 1580 (32.90/17.88)	QQMLVHSTTQQRPTK...QELLN
 1584- 1605 (27.77/13.91)	NQMSPKSASPD.PTGlviDDNLN
 1606- 1623 (20.17/ 8.05)	TTAAI.SSPQKNAEE...VDVL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.58|      21|      22|    1153|    1174|       9
---------------------------------------------------------------------------
 1115- 1143 (29.72/10.92)	DKVGTSPTKLdpssdvpdSAGDKQRHLYG
 1154- 1174 (34.86/15.88)	QKSGTTAASV........SASEFTIHKRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.23|      15|      15|     665|     679|      10
---------------------------------------------------------------------------
  665-  679 (28.93/17.15)	PLAQQCCASAAGQL.P
  681-  696 (17.30/ 6.89)	PVAAVAAAAPFGKVgP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.44|      12|      22|       2|      13|      12
---------------------------------------------------------------------------
    2-   13 (21.10/19.56)	DIMSKDQQLLME
   27-   38 (20.34/18.51)	DILKSAKMNLME
---------------------------------------------------------------------------




































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 MDP06210 with Med1 domain of Kingdom Metazoa
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