<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 MDP30062

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMATWTHFVDRCLQNRLSADKLEKLAIQLNKRIPRDEAQLAEALLRPRSRATACLDPLIPVYLERLLVLNFLDPPEVLHALFRYSRDYATGAEHHGSPKKQQPQPWHITPELEELVFARLSKAFVTNERPKSIVEVQKTLAILSRWMNVLNSSQTAESVIHSLADGSQAQRAQTLVGLGMLVIAAMEHPKVAGVIEAAMPKGLRKSISESLTFFVPHLSQASLQWGERLGMLQKQYSLTTDHASNGMHDGPGSHGLDVSVLQLETVMDLPIINSRAGLYVFINSLLVARPLTDDNMILNYLHARYKVDFQSMAVDLITASFDVLAANATYRSESNETIFNFRSFLVNKVPTLVAILAGSMFPTTTPELCITQALNRIDRNAFPSFSQTFDMAPVNSLLSDVRQDFLVACALHQLIPESSIERLLGETPMSSVPIGGKYVKENLVAQCSTNFERVEELLNEVEGMDGNAGAIVGAMTEIIRNLCSTRETMSLKTICNTLSRKPRSLDVVLQYTSPASILQPLCQLLDSWKNDEDQSEYQPVYDEFGSVLLLVQALLFRHDLKASDLGLEDGSFVVQLIERGHQSLGTDELTEDQNKYLAGWLRGLYDPEGISDELLSSCKPQDFYLLVPTIFSQTIFACSADVLPLDTVKAGLEFLLETFLLPSLVGAVMWITSHALEQNSHDLDITMQILARLIRPASISGEAQAMHGTIVSMVSRRLERCLKSIQHREPSRTDISPLLEALRSYHDYERTPWSSSAELEPWMSNPGASFRSAIKFTMQHLTNWNSTADLNPTPPAYTHRQVFSALQIVGAQKVLRAILEELRNQTVAGTGAVALDIALNIICAPTHINSCTPVSWLNSHAPIHTPSRNGSLNLREMLKHEIDDPAPLMQSDPGLAEAAIRLHRRVEAQLAEAAAAGVHLPTAGTAADAAALNGNLMQGIEMGDVHMDISVSGAGDVTATSGGGADANTSTAGLDQSALDVTAGLGGGADGTTTDLDALGLGGDGSMDGILDAAGAGTADDDVFSGLMGFDDDLNF
Length1035
PositionTail
OrganismMacrophomina phaseolina (strain MS6) (Charcoal rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Dothideomycetes incertae sedis> Botryosphaeriales> Botryosphaeriaceae> Macrophomina.
Aromaticity0.06
Grand average of hydropathy-0.047
Instability index43.07
Isoelectric point5.04
Molecular weight112814.02
Publications
PubMed=22992219

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

>MDP30062
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.45|      23|      23|     952|     974|       1
---------------------------------------------------------------------------
  922-  959 (23.29/ 9.70)	AGTAADAaalNGNlMQGIEmgdvhmdisvsG....AGDVTAT
  960-  983 (35.40/18.37)	SGGGADA...NTS.TAGLD..............qsALDVTAG
  984- 1019 (23.77/10.05)	LGGGADG.....T.TTDLDalglggdgsmdGildaAGAGTAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.97|      11|      30|     750|     760|       3
---------------------------------------------------------------------------
  750-  760 (22.28/12.40)	TPWSSSAELEP
  781-  791 (22.69/12.75)	TNWNSTADLNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     156.88|      51|     371|     128|     185|       4
---------------------------------------------------------------------------
  128-  185 (77.91/63.96)	RPKSI.VEVQKT..LAILSRWMNVLNSSQTAEsvihslaDGSQAQRAQTLVGLGMLVIAAM
  500-  553 (78.98/50.87)	KPRSLdVVLQYTspASILQPLCQLLDSWKNDE.......DQSEYQPVYDEFGSVLLLVQAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.46|      49|     654|      38|      87|       6
---------------------------------------------------------------------------
   38-   87 (82.43/56.41)	QLAEALLRPRS...RATA...CLDPLIPVYLERLL.VLNFLDPPE.....VLHALFRYsRDY
  687-  747 (64.02/38.80)	QILARLIRPASisgEAQAmhgTIVSMVSRRLERCLkSIQHREPSRtdispLLEALRSY.HDY
---------------------------------------------------------------------------




































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 MDP30062 with Med5 domain of Kingdom Fungi
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