<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 MDP32093

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMLSSPSIPQLIATAYAQALPPSRLLKTLQEVHLHNLSPSVQYDLIRAFLDHLLPVPPSIMLAYLAHALSTSVITTQDFTIGLLFYMSGHEIPPIESLVSIVNVLMENPTCFEDGTILPSMLSDPALVQSDTNGELSKYRDNNQTSTLSLLLPLLRVSATPFPPPTLTAFIARLLNCLSPFPVPPLDVGLEAGQLLPSLTDEISIPLRNCLGGLMADATTNDPQQVEQVVFQQDSQLAQGDSPSQVEMPTNSSLPLKATVAFLLEQAHRASQWDPSELALEMEHYQTPAPSYVRMLKAGQHICSNPEEFIVVLFEVSIERLISEDGRSLIAKAEGIRDWGWVTESLPNLLRWWRSQREEDGFVGWQLPSVVAEPLTKAVQVFLPAMQSYSEKVLETYEVMVQSAEIEEESSGFTPPESWQLVSLQEYLIGKLIEMELITRTEACKMIPTISVPQTVQGQSLLERMESESRAHVKPLVFIITYAFGAAKSFAYEIVNIIKSSPQVPPPENLFLHVSYQPSIFSALVTFISPLSLYTLMSDRLLEAYSELDEFARSDDPQGYLTRFGEGVILLESFAREFNLDLPELLANGRRATGYGLLDAEQKDCLNGWVKAIFGSDGIEDQILLATPPQTLCCLVPTLIQQAIAAVACNQIDLDTLHSGLSYFSQPLLSWCLGGVIEWLCDEILRQGALSALHLVVLQALAMGHACPEQLLKVNDRALRKLFNPLSGLDEVIGTSNFDMFAFKAKLESLGITTSHHYGPLNQPSVKSSIQSISSLPFATAFWANPLLDSLWASAGTSNWMTVVLKNIFSQLDTFPVSPVGSACQRSGVYANFVPFLLMVDIKGNEPLLSGLAAWLRNSTEDLIHYTRGSRVLAGIFTQCILLADLIWGRVMAKRVIKELVVELHSVTTLGVRSGGQSEETTQLHSRKMKHRDGRRLTSEQRSMCEDIVKMLTYDDGLRARWGNHWVDLAV
Length970
PositionTail
OrganismCryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (Filobasidiella neoformans)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Tremellomycetes> Tremellales> Cryptococcaceae> Cryptococcus> Cryptococcus neoformans species complex.
Aromaticity0.08
Grand average of hydropathy0.080
Instability index57.86
Isoelectric point4.93
Molecular weight107347.15
Publications
PubMed=15653466

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP32093
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.03|      18|      18|     160|     177|       1
---------------------------------------------------------------------------
  160-  177 (35.74/18.86)	PFPPPTLTAFI..AR.LLNCL
  179-  198 (29.50/14.32)	PFPVPPLDVGLeaGQ.LLPSL
  776-  790 (22.80/ 9.44)	PFA....TAFW..ANpLLDSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.60|      14|      52|     355|     368|       2
---------------------------------------------------------------------------
  355-  368 (28.42/15.25)	QREEDGFV...GWQLPS
  406-  422 (21.18/ 9.68)	EEESSGFTppeSWQLVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      97.83|      28|     267|     310|     341|       3
---------------------------------------------------------------------------
  310-  338 (42.97/28.96)	VVLFEvSIERLISEDGRSLIAKAEGIRDW
  567-  592 (41.73/22.96)	VILLE.SFAREFNLDLPELLA..NGRRAT
  610-  620 (13.12/10.35)	KAIF.................GSDGIED.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.49|      24|     267|       5|      33|       4
---------------------------------------------------------------------------
    5-   28 (41.72/27.93)	PSIPQLIATAYAQAL...PPSRLLKTL
   38-   64 (38.77/15.69)	PSVQYDLIRAFLDHLlpvPPSIMLAYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.33|      28|     116|     670|     706|       6
---------------------------------------------------------------------------
  209-  239 (45.71/20.60)	CLGGL...MADATTNDP..QQVEQVVFQqdsQLAQG
  671-  703 (39.62/35.66)	CLGGViewLCDEILRQGalSALHLVVLQ...ALAMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.38|      17|     265|     540|     558|       7
---------------------------------------------------------------------------
  540-  558 (25.82/21.83)	LLEAYSELDEFARSddPQG
  804-  820 (31.56/19.23)	LKNIFSQLDTFPVS..PVG
---------------------------------------------------------------------------




































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 MDP32093 with Med5 domain of Kingdom Fungi
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