<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 MDP07628

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMALMVKEWSVFLDRCIEHRVQPDLFDGAAAQLHAKSPLPGRKISAVLLRPRICNASSVDPRVVVYLERLLALRKVDASDVLSAAFQYSKDRLPKTEDGKSKEASCNPQELEEIVFHRLSKAFQAEERPVSSTEGLRTLVVLSRWMQTMVTSHTSDTMMQAMAGLQHQPQQQSINVREGMGMLLVGVVENPKMLNILNNPKGKDLRKSFVKSFSSFITFLSHNSIGSQNSLQIANRLEISQKQHDFHDKPATLNGESNGDTGLEVAALQLNNVMDLQTVNTRAGLYVFLNSLLVARPLTDDYTIINYLHSRYKIDAQNMATDLITAAFDILANAMYRSESSQTMFCFKSFLVNKIPILLSQLSPTMFPMTPELCITQALGHIDPNAFPAFSQGFDDIMGNNNSLADVRQDFLNACALHGLLTTATVERLLGDTPIQGPPETRHDKKTILDQCKNNFDKISMYIDEIDNLDGNAGAIVGAIVEFVTHLCETQMTMYLKQLSSLLFKKPQALDVIFQFTSPTSILRPLCQILDDWHYDSDGGEYQPVYDEFGAVLVLVMAFVHRYDLTYHDIGIGPGSFVARLITNGQQSILPVDLTEDQGKHLGHWLKGLYDSGNEGLSNDVFASCSPRDFYIIVPTLFQQTVMALSAGILSFESVKGGIEYLMETFLLPSLIGGLQWMSSYALTQTHSDIDAMLRIFREVILSGPSSGDAQAMHGAVLAIVSSSLEKCFRSIQRRDASRANNIEPLLQAIKGNQHYVRSMYASMKELEQWTNAPNSTLHTSLRHTVQQLSQWATTASIQPNPPSYTHRQVYATLKILGSNKVLRAVVDEIKAQTEADNGAAALDVGVSIICAPTVDDSPVSVDWVGSTIPASHPPRTRLNLREMLKHDFDNAAALVANDPLAAETVVRLHRRVEAQLASLGENALQPVMNLPSVNLGDMQGQTISDDITQAMDDAAAASIDDITNMDNKALQRSMEELTGTDGLDLSSIGMGTGDGGTGDLGNLPDLDLGDMSINMDMDNMDLDMTMGGGGEDDWGLDFDNM
Length1041
PositionTail
OrganismStagonospora sp. SRC1lsM3a
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Massarineae> Massarinaceae> Stagonospora> unclassified Stagonospora.
Aromaticity0.07
Grand average of hydropathy-0.142
Instability index41.39
Isoelectric point4.98
Molecular weight114579.98
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

>MDP07628
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.08|      19|      70|     920|     938|       1
---------------------------------------------------------------------------
  920-  938 (32.45/18.47)	GENALQPVMNLPSVNLGDM
  955-  971 (18.97/ 7.67)	AAASIDDITNMDNKALQ..
  993- 1011 (33.66/19.43)	GDGGTGDLGNLPDLDLGDM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.71|      28|      34|     665|     697|       2
---------------------------------------------------------------------------
  666-  697 (41.88/40.05)	LL..PSlIGGLQWMSSYALTQTHSDIDamlRIFR
  700-  729 (43.83/23.43)	ILsgPS.SGDAQAMHGAVLAIVSSSLE...KCFR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.73|      17|      35|      81|      98|       3
---------------------------------------------------------------------------
   81-   98 (26.16/20.92)	LSAAFQYSKDRLPKTEdG
  118-  134 (29.58/18.38)	LSKAFQAEERPVSSTE.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.91|      21|     434|     433|     456|       4
---------------------------------------------------------------------------
  433-  456 (35.14/34.67)	PIQGPPETRHDKKTILdqcKNNFD
  869-  889 (40.77/28.75)	PASHPPRTRLNLREML...KHDFD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.48|      25|     428|      51|      80|       6
---------------------------------------------------------------------------
   51-   80 (36.32/33.56)	RICnassvDPRVVVYLERL..LALRKVDASDV
  485-  511 (40.16/25.23)	HLC.....ETQMTMYLKQLssLLFKKPQALDV
---------------------------------------------------------------------------




































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 MDP07628 with Med5 domain of Kingdom Fungi
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