<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 MDP31738

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMASEQWRAFVQRCLLHRIDAAEFRDLSMLLFQRCPIGDLLLTETLLQARLATGIKWDPLLPVYIDCLCRMGRVQIPTVLTALLKHSSIHDKPSPGADVASVKKNAKPRAKCYTLMTDIRVIQDAMLSINSGTTVKTLLEVIHTFCAIADWIQAIIAWHNSQLDADQPAGMMGSPDAMLLFEAVGILLSVLAGTGKGIEVLSAGPHEATKIRIGQALSAYLPLCADMYPPLHNRLDGLQKQFNLYGQPPSKLDVTMMDNVNVNALQFEASVMDGPTIHSRAGLYIYINAMLVGRPLVDDSILLNYLYNRYAEHYDVLIEEIITASFDVLSNAMYRNESARTMLLFRSFLVNKLPPFFAAMLAVPMVTFPMEECISHALSRIDPNIFPSFSQMFSMQGNAALSDVRQEFLFSCASHKLIPESSIERLLGENPMQTLPVGGSYMKDELKAQISANHERAEQLISDIESTEGNAGAIVGAITEVMHDLCMQKETMTLKNICNSLSRRPQSLDVMLLFRSPRQILQPLCALLDSWHWDEDQGESQPVYDEFGSILLLVLTFKYRYDLRPWDLGIASNDSFIIKLIEQGSSSQKLDELTEKQNKNLGEWIAALFIAEGISEETMSACSPQEFYMLVSTLFSQSLGACEAGKLEFDTLKGGFEYLLEPFLLPSLVVALTWLGNHIWESEADPTIPLRTLQSLVSPSSISGEAREIHLTVLNITSRSLEEQLKDVRARHPTRTDIKPILDALDPCLSFQRTASCHKSELEPWTTHNPGGLLGSIRATFQSLILWSTSPDVSMAPPSYTHRQVITAIRTLGASRVLAALLDELKFQTESNPGTAGIALDIAASIVSAPLSESFAFDQFQTHHDHSTSKESEQAPHYPIFNLRDALNTQHELVPKLSEKDLLRAEIIVRLYRRVNTLLAPPAQVAPNLDMNMGMNVNVNMNMNNIIGDMHLDSSGDGASNQNMNMNMETDTRTQAQEQGHNNEQANLNQIMDNAAAAVGMDMDMNMGGGGDGMGVGVGVGELGLGEVDQSIDDVLNAAEMNPEFLDLDMEGMFQ
Length1054
PositionTail
OrganismEmericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (Aspergillus nidulans)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus> Aspergillus subgen. Nidulantes.
Aromaticity0.07
Grand average of hydropathy-0.057
Instability index48.50
Isoelectric point4.89
Molecular weight116598.26
Publications
PubMed=16372000
PubMed=19146970

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 (By similarity). 
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

>MDP31738
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     127.91|      30|      71|     922|     951|       1
---------------------------------------------------------------------------
  922-  951 (56.96/28.06)	AQVAPNLDMNMGMNVNV..............NMN..MNNIIGDMHL
  955-  993 (20.27/ 6.13)	GDGASNQNMNMNMETDTrtqaqeqghnneqaNLNqiMDN.......
  996- 1024 (50.68/24.31)	AAVGMDMDMNMGGGGD...............GMG..VGVGVGELGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     196.23|      48|      71|     389|     436|       2
---------------------------------------------------------------------------
  325-  368 (47.52/28.21)	...FDVLSNA.MYRNesARTMLLFrS.FLVNKLPP..FFAAMLA.VPMVTFP.
  389-  436 (83.76/55.75)	SQMFSMQGNA.ALSD..VRQEFLF.S.CASHKLIPESSIERLLGENPMQTLPV
  461-  509 (64.94/41.45)	SDIESTEGNAgAIVG..AITEVMH.DlCMQKETMTLKNICNSLSRRP.QSLDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.49|      57|      74|     158|     231|       3
---------------------------------------------------------------------------
  161-  225 (89.20/104.79)	QLDADQPA.GMMGSPDAML...LFEAVGI.LLSVLAGTGKGIEVLS.AGPHeatkIRIgqalSAYL...PLCAD
  233-  298 (79.29/48.40)	RLDGLQKQfNLYGQPPSKLdvtMMDNVNVnALQFEASVMDGPTIHSrAGLY....IYI....NAMLvgrPLVDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.86|      14|      74|     734|     751|       4
---------------------------------------------------------------------------
  116-  129 (23.46/10.09)	TDIRVIQDAM...LSIN
  735-  751 (19.39/23.89)	TDIKPILDALdpcLSFQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.78|      30|     479|      28|      63|       5
---------------------------------------------------------------------------
   28-   63 (46.89/46.18)	MLLFqRCPIGDLLLTETLLQARlatgiKWD....PLLPVY
  510-  543 (54.89/35.94)	MLLF.RSPRQILQPLCALLDSW.....HWDedqgESQPVY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.90|      24|      25|     848|     872|       7
---------------------------------------------------------------------------
  848-  872 (38.59/28.76)	APLSESFAF.DQFQTHHDhSTSKESE
  874-  898 (39.31/23.90)	APHYPIFNLrDALNTQHE.LVPKLSE
---------------------------------------------------------------------------




































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 MDP31738 with Med5 domain of Kingdom Fungi
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