<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 MDP24929

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMSAHDMSLLGGDSMSIDSGIQVMQSIQGMDGAMALDDVDLFGDPVMDNALGTLPLTSRPPPSKQLQQRLDQLRARGCCQGIAWGRLGNIACVSKDGMSVDIRYMRCNPENGEWDMNDPSSSATISLVHGPPSFISLPSAGAPIVHVAWSPTTHMADLAVIDALGRISILFFPLQINRPYPMRKWDSDPVDDLHSVVGCHWLPIGNAASQSRGFLTQCSGAHWAGSEYKYNHMAQPAFGPSHPHPGRSALVCVTTNGLLRLFYQISSRHEETALELESVTAADDLITHASFCCDKPLATASKQLRVVRVGVNWGNPPSDKQVHPGSIQLRPSMKEVHVATTSWLQHGPSESTLDFSMAQLSHLLVLPSFMETSNPPTFAPAVVVTVRSYLPNETSPYDQETQSIIDRWEVLNDQAQAPHPAFEQLGPRNGAGAAPPTMTRLRKLEPVTIPKVVISMQTTTIQLGRVVCFTFSDGTVQYRDRFTMAELYNEHNTENINSPHQVGFQFDDPTPCLQVAFSPSNFAFVQVCEDNTLKLRKLHYTMGDLGSLQDVQARAVLASLTMPISFAWQQQMTFDDILAVVRPLTQHPKFTNALFKEIITLLRTVVDYSEEQQQLVDTLIRNNQLQSCLSLLNHFGFNGNFEARSFHGKFASVALNLRNIIVLIVLANHSPQKSNGVLNPLDESEVVETLVGCAEWAVSLFSWLIDSLFNLLDDPEFMALLSDQRRFQELANYLHTRNDVSVYLLLCSSTRSLLQVACRRVAGLEEISSRALTYYKTHSVTETGAALHHAYQRMYRTSSSSPVKPQDFERLLSTLGRDISTAYQRTLTAMAKSKDQTQPGATEQQQQQAQQRVELFVKSAQNRWELEMLSGANPPNIFREVLARLFTSTLTTFKALTDPAKLYFANYDLLEVNDDAKTLRARKKAGKYVDVFKRVELVAGQQQQNTQSFPPAAVTNGAQGKGGGGENVKTEAGVWGAAGVKLGGTPSLTLGLAGGGGGGSAGAGNGANGGAAVAMTQVHSPRDEGAGGAGGGHAIRWRRCVRCASVMEDIMNQRPGFTYVLAQQRKCCCGGAWALVANGALG
Length1081
PositionTail
OrganismPodospora anserina (strain S / ATCC MYA-4624 / DSM 980 / FGSC 10383) (Pleurage anserina)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Podospora> Podospora anserina.
Aromaticity0.07
Grand average of hydropathy-0.201
Instability index42.50
Isoelectric point6.38
Molecular weight118100.64
Publications
PubMed=18460219
PubMed=24558260

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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP24929
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.27|      29|      31|     972|    1000|       1
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  972- 1000 (52.30/28.63)	GVWGAAGVK..LGGTPSLTLGLAGG....GGGGSA
 1005- 1033 (49.56/26.73)	GANGGAAVA..MTQVHSPRDEGAGG....AGGGHA
 1039- 1073 (41.41/21.08)	CVRCASVMEdiMNQRPGFTYVLAQQrkccCGGAWA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.80|      13|      15|     411|     424|       2
---------------------------------------------------------------------------
  411-  424 (19.67/15.44)	NDQAQAPhPAFEQL
  428-  440 (24.14/13.35)	NGAGAAP.PTMTRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.81|      21|      24|     554|     577|       3
---------------------------------------------------------------------------
  554-  577 (30.43/23.98)	AVLASLTMPISFAwqqQMTFDDIL
  578-  598 (36.38/19.28)	AVVRPLTQHPKFT...NALFKEII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.31|      10|      29|     783|     792|       6
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  783-  792 (19.52/12.11)	GAALHHAYQR
  815-  824 (18.79/11.39)	GRDISTAYQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.70|      18|      70|     459|     476|       8
---------------------------------------------------------------------------
  459-  476 (33.09/20.26)	TIQLGRVVCFTFSD.GT....VQ
  494-  515 (25.49/13.93)	NINSPHQVGFQFDD.PTpclqVA
  531-  548 (23.12/11.95)	TLKL.RKLHYTMGDlGS....LQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.52|      24|      24|     707|     730|       9
---------------------------------------------------------------------------
  677-  696 (27.87/17.36)	.LNPLDESEVVETLVG...CAEWA
  707-  730 (39.30/27.76)	LFNLLDDPEFMALLSDQRRFQELA
  733-  756 (35.36/24.17)	LHTRNDVSVYLLLCSSTRSLLQVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.13|      20|     234|      63|      84|      13
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   63-   84 (33.96/29.74)	KQLQQRLDQLRARGCcqGIAWG
  294-  313 (35.17/22.17)	KPLATASKQLRVVRV..GVNWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.04|      20|     234|     113|     138|      14
---------------------------------------------------------------------------
  113-  137 (34.53/22.32)	WDMNDPSSS......ATISlvhgpPSFI..SLP
  342-  374 (24.51/ 8.88)	WLQHGPSEStldfsmAQLShllvlPSFMetSNP
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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 MDP24929 with Med16 domain of Kingdom Fungi
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