<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 MDP21822

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequencePSKCWHPRDWLWFTSNCNTMMAVAGKDFISQFPLGDNVSNVYQLADVKGLKWRRYQARTDTASLPLSDPILVSYANALAQDVLCVWQHLKCTSACGNSSGKDDSAANITDPNHGHDCCSSKSCQVFGSGMKELWLFWFGDDPNLSNILSSELKDVEYGTFKDGFTYRCRILLFKAIHNSIERGLLAKSFVRYGRWFVEPERKDKKIYSLSNEEQVSVAFSFFLFGKSTVCTSVEIQHHSSLYSLTVDDITKARQSLNGLDVLLSPFGLKGTLTGRTYSTLDGSREMLKEWNHFYPIHLNSDSDNYPPKSQSQEKQLVPPVVEVVLDKVCMKYPACYVLVPVRITPKAVVEKKKIMEEIPTLPPDFISKITNSVWHRCSTSNFDKSSQSTEYSSVIYQDNTDIDQSTKIWRVTDPSVQSKCNCPLNTSTVNKSTTSATKKASLLQIQSTSMKPSIKTETKSNFSPSVLEPYHKRQFPNSEESKQKTSQVITNGSSDPIPYNGSVTLEESESKRIILKIINPNKNTFVSSPTSSFSNSSPSSPSLSDNVFLSPKGEEKDEKNRILDRKTNSGWFGRGFTNAGSDESKSAYPWQCYDLPGEDETKPPALPVDREESKIFENEKKRGAKDSKSGVNKTKGTTVTVETEQPTPKKKPRVNSTNTRKAGATNRRRNSTKASAAKNAAIDTSVNVLADNTDITPEMNIKESNPAKSKSEIGKKRKYVDGDGSTASPMASSLAINNDKFSAVIHDINYSTPVVSSRLCRPEDLTVTASDLDQIFNTDDESNPSMDQVEKQFSGGEYNATGITSHSSLSNDVGGVSSSVSLEAINSNSLLADEGLFSGEGGIDGNISNGAASKEASSTNIDGSGKDIDCLAATPYSVIDRLPSSAMSHIILSSKLRYIPPKKPLRGNGYNTSNSRSNISYFSSITEKFTNPIVNGQISDSISSSPSVKEHSYDIVEPILAPAIESSVSSFPEGHSLCINLVLSDSIINAHLDSNNEWLQDLLSSVDSCRSAEDVRGRKYIKQFETLISEAGLFDDDITSLVRDFFHGTVNRNLSEKKITGKNKLNNVGYVTDIVLHILCNQCIDAVFDQRLRANRRFEPNKKVDKSFKKLIFRNVLHNVYQSAIAYSKFVLGKENSGGDFPSSNENRWEYIETYEANGIKPSTVIVLDVLHKLHPVLNDLLHRCTSTSWENIPRSSVQGPLTWQQLHNKSNNVDNEEIILRIPKIMTGYEQDWLVVSPFAIPHWERLSLEPFATPNDVSYVVVAPENDAIYDHVKRYFKELSSVYEACKLGTHQPITNINKDGVIRVGRNRAERLQRDDPPEWFHKLDPCPEVSLLKLYIQFCKQPLLYTLRQLDDSPVKSHIGKPFVASSVDKTTDSSNGTGIATALSETKKRNTLPCVVVYMVDPFNFTCDSLGDAQTKLKLINGNSISSASLLIKCFEEVTALLPAAMKRHIVLHIVPCGNVQHLLSSAPPARPNLSNLSLLKAVAFSVYVKCKRYTKLAVDAKSLTGFGMAAVRAQLLGNEKVVDSYSRIHTPLYVIAPSQHVNHYDLSGVTENMIAPRGQRAGVMFCAYHLSENREWLLCVCSDINGEMMEPGIFHMKSIKQDIDNKEQTCIRSVALKKLLGFCVSLMSKTILQWRLVIIRFGKVGPGELKAWGTSNGEQAAKCSSIVVTSSRTDTPVLSPTSKAHSSSATFNNYNGSSIIDNTSSTSNMFPNDDTGLSDHDNLNDWLHNLEPSFSPTPGDTLNSSMDTTSVKQNIDKSQQDSYRDQRLSVDKARETAMSHHPLAIGYLFSEVPTGIFFKSFWMNSDQNGYSSPVLLKVLLTGHTIISPDNSSVEDCPHALDSTQACDVLRYIMERLDAQSWLTINSISHQRRSCLPYYLLGLQKLDQLISRF
Length1899
PositionMiddle
OrganismTrichoplax sp. H2
KingdomMetazoa
LineageEukaryota> Metazoa> Placozoa> Trichoplacidae> Trichoplax> unclassified Trichoplax.
Aromaticity0.08
Grand average of hydropathy-0.424
Instability index44.05
Isoelectric point7.43
Molecular weight210742.11
Publications
PubMed=30042472

Function

Annotated function Component of the Mediator complex, a coactivator involved in 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

>MDP21822
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.59|      10|     149|     379|     388|       2
---------------------------------------------------------------------------
  379-  388 (18.69/ 8.44)	TSNFDKSSQS
  530-  539 (18.90/ 8.62)	TSSFSNSSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     277.66|      68|     291|     398|     466|       3
---------------------------------------------------------------------------
  398-  466 (105.60/68.99)	DNTDIDQSTKIwRVTDPSVQSKCNCPLNTSTVNKSTTSATKKASLLQIQSTSMKPSIKTETKSNFSPSV
  637-  688 (68.73/38.18)	..............TTVTVETEQPTPKKKPRVN...STNTRKAGATNRRRNSTKASAAKNAAIDTSVNV
  691-  754 (103.33/61.91)	DNTDITPEMNI.KESNPA.KSKSEIGKKRKYVDGDGSTASPMASSLAINNDKFSAVIH...DINYSTPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     273.28|      86|     932|      20|     114|       5
---------------------------------------------------------------------------
   20-  114 (135.88/98.87)	MMAVAGKDFISQFPLGDNVSNVYQLADvkglkwRRYQARTDTASLPLSDpiLVSYANAL..AQDVLCvWQHLKCTSACGNSSG..KDDSAANITDPNHG
  959- 1048 (137.40/78.76)	ILAPAIESSVSSFPEGHSLCINLVLSD......SIINAHLDSNNEWLQD..LLSSVDSCrsAEDVRG.RKYIKQFETLISEAGlfDDDITSLVRDFFHG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.67|      37|    1140|     562|     635|       7
---------------------------------------------------------------------------
  572-  608 (69.63/94.13)	FGRGFTNAGSD.ESKSAYPWQCYDLPGEDETKPPALPV
 1130- 1167 (61.04/19.99)	FVLGKENSGGDfPSSNENRWEYIETYEANGIKPSTVIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     197.62|      60|     291|     878|     958|       8
---------------------------------------------------------------------------
  885-  952 (97.66/84.61)	SAMSHIILSSKLRYIPPKK..PLRGNGYNTSNSRSnisyfssiTEKFTNPIVNGQISDSISSSPSVKEHS
 1632- 1693 (99.96/47.58)	SLMSKTILQWRLVIIRFGKvgPGELKAWGTSNGEQ........AAKCSSIVVTSSRTDTPVLSPTSKAHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.94|      31|     681|    1169|    1199|      11
---------------------------------------------------------------------------
 1169- 1199 (57.04/39.57)	DVLHKLHP.....VLNDLLHRCTSTSWENIPRSSVQ
 1842- 1877 (50.90/34.42)	DCPHALDStqacdVLRYIMERLDAQSWLTINSISHQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.97|      33|     220|    1248|    1280|      13
---------------------------------------------------------------------------
 1248- 1280 (58.43/44.40)	LSLEPFATPNDVSYVVVAPENDAIYDHVKRYFK
 1470- 1502 (56.54/42.65)	LSSAPPARPNLSNLSLLKAVAFSVYVKCKRYTK
---------------------------------------------------------------------------




































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 MDP21822 with Med13 domain of Kingdom Metazoa
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