<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 MDP31199

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMHSEANDANKIKRVKEGNRRWKMSYSAEEMMLYRLAKTVSTGTRPKNVQEAVDLLVICVQWMDMVAASMGRGAHEMMDIEAHVEEIGMVGMALGTLMVAVVGNAKILGAIQNGRCPKGTGVDLGKAMAGFVPLLLQSSPQNAQRLDVFRTQTLITILPVDKKERAANAEINEILDSTIGMNIDNIVVADLPTVNSRAGLYIYLNSILVGRPLIDDNAIFAYLHNRYQGDVQSTTVDLILASFDVLANATFRNEGPQTTTILRSFLINKVPLLVSTLATSFFPPLTSEFCITEALSHVDTNAFPTLSTLFAESTNNDMFSDSVRQDFCFACCLHGLIPESSIETLLGDIPMQSLPAGGRYSKQDLVEQCLSDSERAEGLISELENMDGNAGAVSQAIAEVIKHMCGNRETMTLKTLCSQLARNPSSLDIMLLFNKPTLFLQPICELLDNWRYDEDQGEYQPVYEEFGSILLLVVSFAHRYNLSTVDLGIKNPAESFVAKLLVQGHLSRALDPLSQQDQNHLDGWIRGLFEPEGGGLGDELMSSCPPQEFYLLVPTLFHHIVLALSTENLSEDGLKGGLEFMVEPFLLPSLIPGITWLSAHLWEARPQATYVLQILSALIKSPPSISNNMEASHLLNAILKIIAQNLEQSLRWLQRAEPHRHDIDSISKALESNVGWERKGASKYSELEVWTATPGGGLAASIKHTVVTLVQWGLQCDRNPGMQIMPASYTHRQVLTGLKMLGAKRLLNTIIEEVKTQTEAGNGSVVLDIATSLICAPDSASFDSGSGVDIMSGNTPQLLQRRLTLREALKAEAENMPKVHKTDTFHAETVIRLYRRVEAQAVIQQQLLPDDNDLGALNEVMGDAVMGDAGLGPVDQPNLNMDDMGAGSDDLMMMGGSGHGGDLLDAFGGDGLGDGMGF
Length917
PositionTail
OrganismBotryotinia fuckeliana (strain BcDW1) (Noble rot fungus) (Botrytis cinerea)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Sclerotiniaceae> Botrytis.
Aromaticity0.06
Grand average of hydropathy-0.039
Instability index44.28
Isoelectric point4.87
Molecular weight100109.39
Publications
PubMed=23704180

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

>MDP31199
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     279.63|     146|     369|     349|     537|       2
---------------------------------------------------------------------------
   75-  151 (64.96/20.24)	EMMDIEAHVEEIGM...VGMALGTLMVAVVGNAKilgaiqngRCPKGTgVDLG.KAMA.GFVP.LLLQSSPQNAqrLDVFRTQ................................................................................................................................................................................................................................................................................................................
  349-  428 (52.97/48.25)	.........................................................................................................tlitilpvdkkeraanaeineildstigmnidnivvadlptvnsraglyiylnsilvgrpliddnaifaylhnryqgdvqsttvdlilasfdvlanatfrnegpqtttilrsflinkvpllvstlatsffppltsefcitealshvdtnafptlstlfaestnndmfsdsvrqdfcfacclhglipessietllgdiP.MQSLPAGgrYS.KQDLVEQCLSDSERA.EGLISELENMD..GNaGAVSQAIAEVIkhMCGnRETMTLKtlcsqlarNPSSLDI
  444-  537 (81.83/92.72)	ELLDNWRYDEDQGEyqpVYEEFGSILLLVVSFAH........RYNLST.VDLGiKNPAeSFVAkLLVQGHLSRA..LDPLSQQdqnhLDGWIRglfEPeGGGLGD..........................................................................................................................................................................................................................................................................................
  686-  789 (79.86/34.31)	.......................................................................................LEVWTA...TP.GGGLAA..................................................................................................................................................................................sikhtvvtlvqwglqcdrnPgMQIMPAS..YThRQVLTGLKMLGAKRLlNTIIEEVKTQTeaGN.GSVVLDIATSL..ICA.PDSASFD........SGSGVDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.85|      17|      43|     854|     871|       4
---------------------------------------------------------------------------
  854-  871 (27.11/18.66)	GALNEVMGDAVMGDaGLG
  900-  916 (32.74/18.44)	GDLLDAFGGDGLGD.GMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.71|      31|      35|     277|     311|       5
---------------------------------------------------------------------------
  277-  311 (44.94/49.38)	ATSFFPPLTSEFCITEALsHvdtNAFP..TLSTLFAE
  315-  347 (52.77/41.26)	NDMFSDSVRQDFCFACCL.H...GLIPesSIETLLGD
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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 MDP31199 with Med5 domain of Kingdom Fungi
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