<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 MDP24692

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMAAQAAIANWQKLLNNSLASRLDFEPFTEQDGNMQNGANNDANKAKRVKEGNKRWKNSYSAEEMMLYRLAKTVSTGARPKNVQEAVDLLVVSIQWMDMVAVGMRGGAHEILDVEAHVEEIGMILKVLENGTGIELGKAMAGFVPLLLQSSPQNAQRLDAFRTQTLITILPVNKKEQAANAEINDILDSTMGMNIDNIVIADLPAVNSRAGLYIYLNSLQCLSDSERVEGLISELENMDGNAGAVSQAIAEVIKHMCGNKETMTLKSLCSQLARNPSSLDIMLLFNKPTSFLQPICELLDNWRYDEDQGEYQPVYEEFGSILLLVISFTHRYNLSTVDLGIKNPAESFVAKLLVQGHLSRAFDPLSQQDQNHLDGWIRGLFEPEGGGLGDELMSSCPPQEFYLLVPTLFHHIVLALSTDTLSEEGLKGGLEFMVEPFLLPSLIPGITWLSAHLWEARHQATYILQILSALIKNPPSISNNMEASHLLNSILKIVAKNLEQSLRWLQRAEPQRQDIEPISKALESNIGWERRGASKHSELESWTATPGGGMSASIKHTIAILVQWGLQWARNPGMHIMPASYTHRQILSGLKMLGAKRLLNIIIDEVKAQTEAGNGSVALDIATSLVCAPDPTSFDSGRGMDILSGNTPHPLQRRLTLKEALKAEAENMPKVHKTDTFHAETVIRLYRRVEAQSAIQQQLLPHEDGLNALNEVMGDAVMGDAVMGDAGLGPADQTNLNIDDMGAGGEELMMMGGSGHGGDLLDAFGGDDLGDGMGF
Length774
PositionTail
OrganismSclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) (White mold) (Whetzelinia sclerotiorum)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Sclerotiniaceae> Sclerotinia.
Aromaticity0.06
Grand average of hydropathy-0.162
Instability index48.51
Isoelectric point5.01
Molecular weight84707.69
Publications
PubMed=21876677

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

>MDP24692
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.10|      22|      25|     541|     565|       1
---------------------------------------------------------------------------
  541-  565 (32.84/32.01)	WTATPGGG.MSASIKHTiAILVqwGL
  567-  589 (41.27/25.62)	WARNPGMHiMPASYTHR.QILS..GL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.37|      23|      25|     491|     515|       2
---------------------------------------------------------------------------
  493-  515 (39.02/31.45)	VAKNLEQSLRWLQRAEPQRQDIE
  517-  539 (38.34/23.34)	ISKALESNIGWERRGASKHSELE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.03|      22|      25|     722|     743|       3
---------------------------------------------------------------------------
  722-  743 (41.59/24.10)	MGDAGLGPADQTNLNIDDMGAG
  750-  771 (39.43/22.45)	MGGSGHGGDLLDAFGGDDLGDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.76|      24|      25|     441|     465|       4
---------------------------------------------------------------------------
  441-  465 (38.60/28.82)	LIPGITWLSAHLwEARHQATYILQI
  469-  492 (41.16/24.56)	LIKNPPSISNNM.EASHLLNSILKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.03|      14|      25|     258|     271|       5
---------------------------------------------------------------------------
  258-  271 (24.73/14.75)	NKETMTLKSLCSQL
  285-  298 (26.30/16.07)	NKPTSFLQPICELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.99|      16|      29|     306|     334|       6
---------------------------------------------------------------------------
  306-  322 (24.77/42.40)	DQGEYQPVyEEFGSILL
  337-  352 (27.22/ 9.58)	DLGIKNPA.ESFVAKLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.30|      20|      23|      45|      65|       7
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   45-   65 (32.37/25.83)	AKRVKEGNkRWKNSYSAEEMM
   70-   89 (32.94/21.21)	AKTVSTGA.RPKNVQEAVDLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.00|      24|     327|     360|     389|       9
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  355-  380 (38.58/30.59)	GHLSRAFdpLSQQDQNHLDGWIRGLF
  385-  408 (43.42/18.56)	GGLGDEL..MSSCPPQEFYLLVPTLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      25.42|       8|      23|     610|     620|      10
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  610-  620 ( 9.53/ 9.99)	EAGNGsvaLDI
  634-  641 (15.88/ 7.01)	DSGRG...MDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.01|      17|     192|     217|     237|      11
---------------------------------------------------------------------------
  217-  237 (25.34/26.25)	SLQCLSDservEGLISELENM
  416-  432 (30.67/20.01)	STDTLSE....EGLKGGLEFM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.90|      24|      31|     650|     678|      12
---------------------------------------------------------------------------
  650-  678 (26.93/33.03)	LQRRLTLKEALKAEAenMPkvHKtDTFHA
  684-  707 (40.97/26.29)	LYRRVEAQSAIQQQL..LP..HE.DGLNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.96|      16|      16|     179|     194|      13
---------------------------------------------------------------------------
  179-  194 (28.26/19.50)	NAEINDI..LDSTMGMNI
  196-  213 (21.71/13.21)	NIVIADLpaVNSRAGLYI
---------------------------------------------------------------------------




































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 MDP24692 with Med5 domain of Kingdom Fungi
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