<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 MDP03221

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDDSIDVDDLFGDPNSLELGLAASAPTWKSLSQRFDELRLSGCCRKLAWSKLGAIAYISNDGQKVFLQNILCNADDGEWSLCDGRFRCKIAEAQSGHTFIHLCWHESGSDLAIVDSCGRVMIVSMSIALNAFAVSRSIVIDPDDDGNQPVGLMWLGVNRPVGAVHAFNKASKTNGRWVYSRYVRRPLGPFHPLNKSALVCVTRSGHIRLLYQSQDPKWNEVHVDLQTVSCSDDILTHAALSASQGGSILMVTYSTQHRLFVYRVHIKWDAAPVDTTQQQPVGFSVAQTPTIQITHIRTEIQRSVFQRADNDYERSPSARVMPVLTHLDIVGIASDGSAGSYVEPYILAAFAIPVSALETQRQFNGTSSIVRWALESTGQSTHSSFDEIPPKRQTFNLTPKTELTRWDDIHFDKRVLSIDYFEAGSVVSLTFDDGSISFYDAKTMNAISDNEDLATISSMPQAGFNLPNIGCITCISFSPNGCLAVTLDEDSELHLHVMEHSFGIEHGMYNDEQFGAAVAALALAFSHACSNDSSSDDVMMIAARSLTPDTRKTFITEVYHALSVNADFTIEQDKLMNNPYIQKCFSMQAALGFNGRLEQRNLAAAIPWFTLQLRQISILFAYFLHFNKSGSDSECHEPDILRMVLGNVRWALDLAKYLIDDLFEIASSFDKHSGDQSDKKLESFSMLLVLSSIPRAFLKYICRGLRGIPSSFRSATNLSNESFGVYSNIVRLIEESPLRVDVYEKFLLSIDNVIKYTYQNAGFGSTDRSTPERDLLITASVPPVLQPAVVTILTNTMTLIRPDVDLLHLCTWDYSWLGIDDDKLTRLFRRRNEVDILKKTITQLGEPQAKSKQPKRRCARCCAVSEDTTSPKSLASFRLLVKTVVLRTCICGGVWMVENLDTISRGPVSAWK
Length912
PositionTail
OrganismCoccidioides immitis (strain RS) (Valley fever fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Onygenales> Onygenales incertae sedis> Coccidioides.
Aromaticity0.09
Grand average of hydropathy-0.106
Instability index46.44
Isoelectric point5.80
Molecular weight101533.23
Publications
PubMed=19717792
PubMed=20516208

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

>MDP03221
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     140.60|      42|      43|     626|     668|       1
---------------------------------------------------------------------------
  611-  630 (21.76/10.85)	.....................LQLRQ..ISILFAYFLHFNK.SG
  631-  674 (66.67/58.62)	SDSECHEPDILrMVLGNVRWALDLAKYLIDDLFEIASSFDKhSG
  677-  711 (52.18/39.39)	SDKKLESFSML.LVLSSIPRA..FLKYICRGLRGIPSS......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.07|      13|     192|     217|     229|       3
---------------------------------------------------------------------------
  217-  229 (23.49/16.40)	KWNEVHVDLQTVS
  405-  417 (24.57/17.52)	RWDDIHFDKRVLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.46|      35|     129|     118|     152|       5
---------------------------------------------------------------------------
  118-  152 (60.64/40.12)	GRVMIVSMSIALNAFAVSRSIVID..P.DDDGNQPVGL
  246-  283 (56.82/37.14)	GSILMVTYSTQHRLFVYRVHIKWDaaPvDTTQQQPVGF
---------------------------------------------------------------------------




































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 MDP03221 with Med16 domain of Kingdom Fungi
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