<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 MDP01860

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMKPIQQWRKLLHECVARRIEVDVFCKLVKILARRAPLQQAYLVGVLLESRAVTADIFPYDPLIPRYATALRKLGLIRTATLLDGLRKQPFIESQSTADAEQSQKTVNSSILMTDTRIVQDLIAPLSSSSPSLDTQDIQSIFAITAEWILDVARWHTSNINDENQMGGLMSSPDALALFESLGILLVALSATAKGHDALASESTSDFKIPLGQALTAYLSTSASISLNLRNRLDSLQKGYQLYGEPPSKDLDVQMMDGMSTNALQFEASVLDGPVINSRAGLYIYINALLIGRPLIDDEMLLSYLSNRYGGQQEVLIQELITATFDVLSNAMYRNESTRNMFVFRSFLVNKLPPFLAGMAATSIEQIPMEMCISHALNRVDPNAFPSFSQMFEMQGNTVLSDVRQEFLFACALHRLIPESSIERLLGENPMQTLPVGGRYVKNDIVAQILSNQGAADRLISEIELMEGNAGAVVAAVTDPLCTLLDSWKWDEDQGESQPVYDEFGSILLLVMAFKYRYDLSQYDLGVTASSSFVLKLFERGSTSMKLASLDAKQNKSVGDWISALFMSEGISEETWSSCSPQEFYLLVATLFSQTLGACEMGMLELDTIKGGFEYLLQPFLLPSLVFALKWLGNYIWESPEADLLLLLKVLRALVKPNSISGEAEACHQTVLNIAAQSLEEQLKDVRTRLPGGRSDHQSDIQPNPNQDIQQEIQSLLDILEPYLSFQCNGNSRRSELDSWTTHTDGICGVIRVTFQGLILWSASAEMSMSPHAYTHRLILVGIRLSTASNVLSALLDELRAQAEEASGSLDLAIDIAATLICAPIPESFAQEQTIYHPIDSTKEAFPRCLLLTLRQALMIQHQNVPRLSEKDPTRAEVIVRLTRRVNALLTPPAHVGTIDVTNIIDNMNLEAAAAAAGHDVIDLNNGNGTGNDGGAGAPGESIDQILNNVVAATSNDHHGTGNESQDLDVTGMDTSLDDILNAAHMGNPEFLDLDMDGMF
Length999
PositionTail
OrganismTalaromyces marneffei PM1
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Trichocomaceae> Talaromyces> Talaromyces sect. Talaromyces.
Aromaticity0.07
Grand average of hydropathy-0.008
Instability index46.49
Isoelectric point4.66
Molecular weight109746.77
Publications
PubMed=25330172

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

>MDP01860
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.15|      17|      28|     955|     972|       1
---------------------------------------------------------------------------
  955-  972 (29.61/21.13)	NDHHgTGN.ESQDLDVTGM
  981-  998 (29.54/15.75)	NAAH.MGNpEFLDLDMDGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.38|      17|      27|     751|     767|       3
---------------------------------------------------------------------------
  751-  767 (29.85/19.92)	RVTFQGLILWSASAEMS
  776-  792 (26.53/16.84)	RLILVGIRLSTASNVLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.81|      23|      27|     339|     365|       4
---------------------------------------------------------------------------
  339-  353 (20.29/ 9.43)	......................NMFVFRSFLVNKLPP
  358-  381 (30.81/28.09)	MAATSIEQ...........ipmEMCI..SHALNRVDP
  382-  417 (29.71/14.56)	NAFPSFSQmfemqgntvlsdvrQEFLFACAL.HRLIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.85|      19|      22|     898|     919|       5
---------------------------------------------------------------------------
  898-  917 (27.38/25.04)	IDVTNIIDNMNlEAAAAAAG
  921-  939 (35.46/18.86)	IDLNNGNGTGN.DGGAGAPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.27|      23|      28|     830|     857|       6
---------------------------------------------------------------------------
  830-  857 (31.06/37.82)	QEQTIyhPIDSTK.....EAFPRcllLTLR.QAL
  860-  888 (30.21/18.79)	QHQNV..PRLSEKdptraEVIVR...LTRRvNAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.94|      19|      22|     284|     305|       7
---------------------------------------------------------------------------
  261-  279 (30.86/16.81)	NALQFEASVLDGPVINSR.A
  286-  305 (27.08/15.76)	NALLIGRPLIDDEMLLSYlS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.11|      13|      27|     701|     714|       8
---------------------------------------------------------------------------
  701-  714 (20.30/17.90)	QPNPNQDiQQEIQS
  726-  738 (23.81/15.46)	QCNGNSR.RSELDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.97|      14|      25|      55|      68|      10
---------------------------------------------------------------------------
   55-   68 (26.62/13.73)	DIFPYDPLIPRYAT
   83-   96 (24.36/12.05)	DGLRKQPFIESQST
---------------------------------------------------------------------------




































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 MDP01860 with Med5 domain of Kingdom Fungi
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